CATH Domain: 2gm6A01 XML data for domain: 2gm6A01

Molscript image for 2gm6A01
2gm6A01
PDB coordinates for domain 2gm6A01

PDB 2gm6, Chain A, Domain 1

CATH CodeLevel DescriptionLinks
1 Mainly Alpha
1.20 Up-down Bundle
1.20.5 Single alpha-helices involved in coiled-coils or other helix-helix interfaces
1.20.5.440 Gene3D
1.20.5.440.4
1.20.5.440.4.1
1.20.5.440.4.1.1
1.20.5.440.4.1.1.1
1.20.5.440.4.1.1.1.1

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Segment boundaries for domain 2gm6A01

Chopping figure for domain 2gm6A01
DomainStart PDB ResidueStop PDB Residue
2gm6A01 11 50
2gm6A02 51 193

Structural Neighbourhood (13 entries)

There are 13 matching structural neighberhood comparisons for CATH ID 1.20.5.440.4.1.1.1.1 (SIMAX score < 5)

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Displaying entries 1 to 13 (page 1 of 1)
Match Depth Match SSAP score Match Keywords Match Superfamily Length Sequence Id Overlap RMSD SIMAX
2qsiA02 77.15 Putative hydrogenase expression/formation protein hupGHydrogenase-1 operon protein HyaERhodopseudomonas palustris 1.20.5.510 27 18 71 2.69 3.79
2pusA02 76.49 Infectious bursal disease virusRNA-directed RNA polymerase 1.10.287.540 53 15 71 2.99 4.17
2rh0A02 74.89 Mus musculusNudC domain-containing protein 2 1.20.5.740 29 3 63 2.19 3.47
1vl2B03 74.70 Thermotoga maritimaArginine and proline metabolismArgininosuccinate synthase [EC:6.3.4.5]Alanine, aspartate and glutamate metabolismArgininosuccinate synthase 1.20.5.470 30 6 55 1.78 3.22
2qiwA02 71.99 Corynebacterium glutamicumPEP phosphonomutase and related enzymes 1.20.5.510 18 11 44 0.89 1.99
2a3dA00 70.89 1.20.58.130 73 10 52 2.50 4.80
2aefB02 70.62 Methanothermobacter thermautotrophicus str. Delta HCalcium-gated potassium channel mthK 1.20.5.870 28 7 73 3.45 4.68
1vf5C03 70.39 Mastigocladus laminosusApocytochrome f 1.20.5.700 32 3 50 1.87 3.74
1mkmA02 68.63 Thermotoga maritimaTranscriptional regulator, IclR family 1.20.5.640 14 0 36 0.83 2.25
2o01J01 67.95 Photosystem I reaction center subunit IXSpinacia oleracea 1.20.5.510 25 16 50 2.47 4.94
1k8vA00 67.83 Neuropeptide FMoniezia expansa 1.20.5.570 39 0 56 2.53 4.49
2p10B02 67.06 Mesorhizobium lotiMll9387 protein 1.20.5.460 26 7 42 1.79 4.25
1d66B02 61.61 Regulatory protein GAL4NucleusSequence-specific DNA binding transcription factor activityTranscription activator activityPositive regulation of transcription by galactose 1.20.5.640 15 6 34 0.97 2.84
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Displaying entries 1 to 13 (page 1 of 1)


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Domain ATOM Sequence 

>pdb|2gm6A01
SLAPLREFITGLSALLDEQPGEARILREGGALLARLVARD
BLAST against CATH

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Domain COMBS Sequence 

>pdb|2gm6A01
GXSESPTAGRASLAPLREFITGLSALLDEQPGEARILREGGALLARLVARD
BLAST against CATH

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Domain History Events (136)

Domain assigned by cuff on 04 Feb 2008 13:51

nice homologue match

Domain assignment manual match h by tronnberg on 15 Jan 2008 15:27

High enough SSAP score to assign the query to the same superfamily as the match.

Homcheck review by tronnberg on 15 Jan 2008 15:27

High enough SSAP score to assign the query to the same superfamily as the match.

Flow stage update by tronnberg on 15 Jan 2008 15:27

High enough SSAP score to assign the query to the same superfamily as the match.

Homcheck return by cuff on 14 Jan 2008 15:21

i think with this good a structural similarity score these can be safely placed in the same superfamily

Flow stage update by cuff on 14 Jan 2008 15:21

i think with this good a structural similarity score these can be safely placed in the same superfamily

Homcheck comment by tronnberg on 11 Sep 2007 15:39

SSAP: 82.53 OV: 78 SEQ: 10. The query and match only consists of two alfa helices, but they are of the same lenght and the linker is located at the same place. The query's function is unknown.

Domain assignment manual match t by tronnberg on 21 Aug 2007 12:32

SSAP=82, seq sim=10. Similar link folding (only one link in this domain).

Homcheck review by tronnberg on 21 Aug 2007 12:32

SSAP=82, seq sim=10. Similar link folding (only one link in this domain).

Flow stage update by tronnberg on 21 Aug 2007 12:32

SSAP=82, seq sim=10. Similar link folding (only one link in this domain).

Homcheck allotment by tronnberg on 21 Aug 2007 12:28

User 'tronnberg' has allocated a domain to themselves for HomChecking with comment : Grabbed this domain via HomCheck's "Get Me A Domain" button.

Flow stage update by tronnberg on 21 Aug 2007 12:28

User 'tronnberg' has allocated a domain to themselves for HomChecking with comment : Grabbed this domain via HomCheck's "Get Me A Domain" button.

Flow stage update by auto on 21 Aug 2007 12:05

Domain "2gm6A01" SCOP scan with no results - no SCOP mapping

Domain scan scop cath by auto on 21 Aug 2007 12:04

Adding scan of type "DOMAIN_SCAN_SCOP_CATH" with 0 results for 2gm6A01

Flow stage update by auto on 21 Aug 2007 11:50

Retrieved PRC_PFAMCATH results for job ID SID8902345070670048 and results inserted.

Domain scan prc pfamcath by auto on 21 Aug 2007 11:49

Adding scan of type "DOMAIN_SCAN_PRC_PFAMCATH" with 0 results for 2gm6A01

Update comment by auto on 19 Aug 2007 11:08

PRC_PFAMCATH job SID8902345070670048 is not yet finished.

Flow stage update by auto on 19 Aug 2007 11:05

The entry "2gm6A01" has been submitted to the PRC_PFAMCATH webservice.

Prc pfamcath submit by auto on 19 Aug 2007 11:05

The entry "2gm6A01" has been submitted to the PRC_PFAMCATH webservice.

Flow stage update by auto on 19 Aug 2007 08:38

Giving up on PRC_PFAMCATH job SID8952595698691744 because submission time of Fri Aug 17 04:27:07 2007 is more than 172800 seconds older than current time (Sun Aug 19 08:38:07 2007).

Update comment by auto on 17 Aug 2007 04:28

PRC_PFAMCATH job SID8952595698691744 is not yet finished.

Flow stage update by auto on 17 Aug 2007 04:27

The entry "2gm6A01" has been submitted to the PRC_PFAMCATH webservice.

Prc pfamcath submit by auto on 17 Aug 2007 04:27

The entry "2gm6A01" has been submitted to the PRC_PFAMCATH webservice.

Flow stage update by auto on 17 Aug 2007 03:21

Retrieved SSAP results for job ID SID6591196264724264 and chopping inserted.

Domain scan ssap cath by auto on 17 Aug 2007 03:19

Adding scan of type "DOMAIN_SCAN_SSAP_CATH" with 1333 results for 2gm6A01

Update comment by auto on 16 Aug 2007 23:38

SSAP job SID6591196264724264 is not yet finished.

Ssap cath submit by auto on 16 Aug 2007 22:32

The entry "2gm6A01" has been submitted to the SSAP webservice.

Flow stage update by auto on 16 Aug 2007 22:32

The entry "2gm6A01" has been submitted to the SSAP webservice.

Flow stage update by auto on 16 Aug 2007 17:27

Giving up on SSAP job SID2723104099859920 because submission time of Tue Aug 14 08:37:46 2007 is more than 172800 seconds older than current time (Thu Aug 16 17:27:20 2007).

Update comment by auto on 14 Aug 2007 10:09

SSAP job SID2723104099859920 is not yet finished.

Ssap cath submit by auto on 14 Aug 2007 08:37

The entry "2gm6A01" has been submitted to the SSAP webservice.

Flow stage update by auto on 14 Aug 2007 08:37

The entry "2gm6A01" has been submitted to the SSAP webservice.

Flow stage update by auto on 14 Aug 2007 03:39

Retrieved PRC results for job ID SID5243219475315938 and inserted them into the database.

Domain scan prc cath by auto on 14 Aug 2007 03:38

Adding scan of type "DOMAIN_SCAN_PRC_CATH" with 1 results for 2gm6A01

Flow stage update by auto on 13 Aug 2007 09:51

The entry "2gm6A01" has been submitted to the PRC webservice.

Prc cath submit by auto on 13 Aug 2007 09:51

The entry "2gm6A01" has been submitted to the PRC webservice.

Flow stage update by auto on 13 Aug 2007 05:29

Retrieved HMM(SAM) results for job ID SID1086857145785888 and inserted them into the database.

Domain scan sam cath by auto on 13 Aug 2007 05:28

Adding scan of type "DOMAIN_SCAN_SAM_CATH" with 1 results for 2gm6A01

Update comment by auto on 12 Aug 2007 12:47

HMM(SAM) job SID1086857145785888 is not yet finished.

Sam cath submit by auto on 12 Aug 2007 06:42

The entry "2gm6A01" has been submitted to the HMM (SAM) webservice.

Flow stage update by auto on 12 Aug 2007 06:42

The entry "2gm6A01" has been submitted to the HMM (SAM) webservice.

Flow stage update by auto on 11 Aug 2007 23:10

Retrieved "2gm6A01" CATHEDRAL results for job ID SID8530305050584416 and inserted them into the database.

Domain scan cathedral cath by auto on 11 Aug 2007 23:10

Adding scan of type "DOMAIN_SCAN_CATHEDRAL_CATH" with 133 results for 2gm6A01

Update comment by auto on 11 Aug 2007 05:31

"2gm6A01" CATHEDRAL job SID8530305050584416 is not yet finished.

Cathedral cath submit by auto on 11 Aug 2007 03:50

The entry "2gm6A01" has been submitted to the CATHEDRAL webservice.

Flow stage update by auto on 11 Aug 2007 03:50

The entry "2gm6A01" has been submitted to the CATHEDRAL webservice.

Flow stage update by auto on 11 Aug 2007 01:26

ScanList with 9778 domains written to "/cath/data/current/scanlists/cathdb_current.fletcher/2gm6A01.scanlist" for "2gm6A01"

Write scan list by auto on 11 Aug 2007 01:26

Writing ScanList containing 9778 domains to file "/cath/data/current/scanlists/cathdb_current.fletcher/2gm6A01.scanlist" for domain "2gm6A01"

Update comment by auto on 10 Aug 2007 14:30

Waiting for 984 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 10 Aug 2007 10:29

Waiting for 1052 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 10 Aug 2007 06:42

Waiting for 1095 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 10 Aug 2007 02:43

Waiting for 1146 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 22:30

Waiting for 1198 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 19:10

Waiting for 1261 new domains (example : 1h4uA00) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 14:54

Waiting for 1336 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 10:54

Waiting for 1377 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 06:40

Waiting for 1412 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 09 Aug 2007 02:47

Waiting for 1457 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 22:31

Waiting for 1505 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 18:38

Waiting for 1577 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 14:38

Waiting for 1645 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 11:00

Waiting for 1704 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 06:46

Waiting for 1742 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 08 Aug 2007 02:52

Waiting for 1792 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 22:41

Waiting for 1837 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 19:28

Waiting for 1893 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 15:08

Waiting for 1975 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 10:39

Waiting for 2056 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 06:50

Waiting for 2116 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 07 Aug 2007 02:44

Waiting for 2178 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 22:32

Waiting for 2230 new domains (example : 1t6pF01) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 18:46

Waiting for 2293 new domains (example : 1t6pD03) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 14:40

Waiting for 2348 new domains (example : 1rqrB02) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 11:17

Waiting for 2404 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 09:11

Waiting for 2415 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 06 Aug 2007 02:09

Waiting for 2528 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 05 Aug 2007 19:00

Waiting for 2652 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 05 Aug 2007 07:14

Waiting for 2828 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 05 Aug 2007 03:06

Waiting for 2883 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 22:46

Waiting for 2924 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 19:01

Waiting for 2965 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 15:03

Waiting for 3034 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 11:02

Waiting for 3098 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 06:54

Waiting for 3152 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 04 Aug 2007 03:02

Waiting for 3197 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 22:50

Waiting for 3216 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 19:47

Waiting for 3206 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 15:41

Waiting for 3198 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 10:53

Waiting for 3055 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 06:55

Waiting for 3126 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 03 Aug 2007 02:54

Waiting for 3204 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 22:42

Waiting for 3254 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 19:23

Waiting for 3282 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 15:15

Waiting for 3339 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 10:56

Waiting for 3395 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 06:56

Waiting for 3471 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 02 Aug 2007 02:55

Waiting for 3542 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 22:38

Waiting for 3606 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 19:26

Waiting for 3650 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 14:57

Waiting for 3730 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 10:48

Waiting for 3800 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 06:49

Waiting for 3884 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 01 Aug 2007 02:54

Waiting for 3939 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 22:37

Waiting for 3997 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 18:54

Waiting for 4076 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 14:46

Waiting for 4166 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 11:04

Waiting for 4233 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 07:18

Waiting for 4307 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 31 Jul 2007 03:22

Waiting for 4386 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 30 Jul 2007 23:26

Waiting for 4468 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 30 Jul 2007 19:48

Waiting for 4553 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 30 Jul 2007 16:18

Waiting for 4605 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 30 Jul 2007 09:58

Waiting for 4715 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 30 Jul 2007 02:24

Waiting for 4857 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 29 Jul 2007 11:25

Waiting for 4966 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 29 Jul 2007 07:24

Waiting for 5043 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 29 Jul 2007 03:24

Waiting for 5108 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 29 Jul 2007 00:30

Waiting for 5134 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 28 Jul 2007 19:06

Waiting for 5205 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 28 Jul 2007 15:00

Waiting for 5292 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 28 Jul 2007 11:01

Waiting for 5345 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 28 Jul 2007 07:04

Waiting for 5411 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 28 Jul 2007 03:09

Waiting for 5495 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 22:44

Waiting for 5546 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 19:02

Waiting for 5622 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 14:55

Waiting for 5708 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 10:50

Waiting for 5804 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 06:51

Waiting for 5906 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 27 Jul 2007 02:45

Waiting for 5998 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Update comment by auto on 26 Jul 2007 23:10

Waiting for 6044 new domains (example : 1gviA01) to be processed so that they can be scanned against too.

Flow stage update by auto on 26 Jul 2007 22:47

No satisfactory AssignClose result found.

Flow stage update by auto on 26 Jul 2007 22:43

No in_process hits for Domain "2gm6A01" ready to be processed

Flow stage update by auto on 26 Jul 2007 22:43

NW result present for Domain "2gm6A01"

Flow stage update by auto on 12 Jul 2007 02:02

All required files are present for Domain "2gm6A01"

Flow stage update by auto on 10 Jul 2007 12:04

Beginning processing for Domain "2gm6A01"

Insertion by cuff on 10 Jul 2007 11:18

nice chopping