CATH Domain: 1gd2F00 XML data for domain: 1gd2F00

Molscript image for 1gd2F00
1gd2F00
PDB coordinates for domain 1gd2F00

PDB 1gd2, Chain F, Domain 0

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
1.20.5.170 Gene3D
1.20.5.170.11
1.20.5.170.11.1
1.20.5.170.11.1.1
1.20.5.170.11.1.1.1
1.20.5.170.11.1.1.1.1

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Segment boundaries for domain 1gd2F00

Chopping figure for domain 1gd2F00
DomainStart PDB ResidueStop PDB Residue
1gd2F00 77 140

Structural Neighbourhood (55 entries)

There are 55 matching structural neighberhood comparisons for CATH ID 1.20.5.170.11.1.1.1.1 (SIMAX score < 5)

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Displaying entries 1 to 55 (page 1 of 1)
Match Depth Match SSAP score Match Keywords Match Superfamily Length Sequence Id Overlap RMSD SIMAX
3ii6A02 87.97 DNA ligation involved in DNA repairProtein C-terminus bindingDNA-dependent protein kinase-DNA ligase 4 complexResponse to X-rayDouble-strand break repair via nonhomologous end joining 1.20.5.370 58 8 87 2.45 2.80
3efgA00 87.27 Xanthomonas campestris pv. campestrisSlyX proteinProtein slyX homolog 1.20.5.300 49 8 76 1.62 2.12
3gwoA00 86.05 Human immunodeficiency virus type 1 lw12.3 isolateEnvelope glycoprotein gp160 1.10.287.210 53 3 79 2.45 3.07
2b9bA04 85.66 Simian virus 5 (strain W3)Fusion glycoprotein F0 1.20.5.1070 62 16 89 3.24 3.64
1svfC00 84.81 Simian virus 5 (strain W3)Fusion glycoprotein F0 1.20.5.300 62 14 95 4.11 4.31
1ik7A00 84.81 Regulation of proteolysisProtein domain specific bindingHemocyte proliferationPlasma membraneZygotic specification of dorsal/ventral axis 1.20.5.530 52 7 81 3.00 3.69
1pl5A00 84.72 Chromatin silencing complexLoss of chromatin silencing involved in replicative cell agingChromatin silencingDouble-strand break repair via nonhomologous end joiningDouble-stranded DNA binding 1.20.5.730 75 9 81 3.09 3.80
1ezjA02 84.17 Sendai virus (strain Harris)Phosphoprotein 1.10.287.340 52 13 73 3.40 4.63
3kpeA00 83.44 Fusion glycoprotein F0Human respiratory syncytial virus A2 1.20.5.300 47 4 71 2.13 2.96
1gmjD00 83.12 Negative regulation of hydrolase activityProtein homodimerization activityATPase inhibitor activityBos taurusCalmodulin binding 1.20.5.500 56 12 75 2.82 3.76
1nknA00 83.10 NucleusPositive regulation of RNA polymerase II transcriptional preinitiation complex assemblyGeneral control protein GCN4General control protein GCN4Positive regulation of gene-specific transcription from RNA polymerase II promoter 1.20.5.340 74 7 64 2.74 4.22
2w83C00 82.80 Homo sapiensIntegral to membraneC-Jun-amino-terminal kinase-interacting protein 4SpermatogenesisPositive regulation of cell migration 1.20.5.1000 67 10 71 2.68 3.74
1jekA00 82.70 Visna/maedi virus EV1 KV1772Envelope glycoprotein gp160 1.20.5.440 40 2 56 2.08 3.70
1e5wA04 82.68 Leukocyte migrationReceptor bindingCytoskeletonMembrane to membrane dockingNucleolus 1.20.5.450 55 9 73 2.98 4.06
1dh3A00 82.52 Positive regulation of multicellular organism growthLactationRegulation of cell sizeAxonogenesisMus musculus 1.20.5.170 55 12 85 3.46 4.03
1l2pA00 82.47 Oxidative phosphorylationMetabolic pathwaysATP synthesis coupled proton transportAnchored to membraneF-type H+-transporting ATPase subunit b [EC:3.6.3.14] 1.20.5.620 61 8 68 2.77 4.03
1ybkA00 81.99 TetrabrachionStaphylothermus marinus 1.20.5.1060 52 3 67 2.47 3.68
3effK02 81.90 Streptomyces lividansVoltage-gated potassium channel 1.20.5.440 45 8 67 2.16 3.21
2o1kA00 81.69 Simian rotavirus A/SA11-bothNon-structural glycoprotein 4 1.20.5.430 42 16 65 2.24 3.41
2wpqA00 81.52 Salmonella enterica subsp. enterica serovar TyphimuriumPutative inner membrane protein 1.20.5.980 99 9 64 1.88 2.91
1no4C00 81.51 Bacillus phage phi29Head morphogenesis protein 1.20.5.400 73 1 56 2.05 3.65
1ci6A00 81.21 Positive regulation of transcription from RNA polymerase II promoterCellular amino acid metabolic processNeurotrophin signaling pathwayActivating transcription factor 4Sequence-specific DNA binding transcription factor activity 1.20.5.170 56 7 59 1.40 2.36
1kv4A00 81.08 Moricin-1Bombyx mori 1.20.5.750 42 9 65 3.11 4.74
1jocA01 80.93 Zinc ion bindingVesicle fusionMembrane fractionSynaptic vesicle to endosome fusionProtein homodimerization activity 1.20.5.390 60 3 54 2.17 3.97
1tiiC00 80.84 Heat-labile enterotoxin IIB, A chainEscherichia coli 1.20.5.200 36 11 51 2.17 4.21
1n2dC00 80.82 Mating projection tipGolgi inheritanceActin filament bindingVesicle-mediated transportMyosin-2 1.20.5.190 48 4 59 2.23 3.76
3cx5E01 80.44 Cytochrome b-c1 complex subunit Rieske, mitochondrialMitochondrial respiratory chain complex IIIOxidative phosphorylationMetabolic pathwaysAerobic respiration 1.20.5.270 55 1 57 2.25 3.89
2r9iA00 80.43 Putative phage capsid proteinCorynebacterium diphtheriae 1.10.287.80 69 7 66 3.22 4.83
1nwqA00 79.92 Protein domain specific bindingRattus norvegicusAcute-phase responsePathways in cancerOrgan regeneration 1.20.5.170 60 6 53 0.87 1.64
1ifpA00 79.02 Pseudomonas phage Pf3Capsid protein G8P 1.20.5.440 44 4 68 3.12 4.54
2zxeB01 78.95 1.20.5.170 35 5 50 1.94 3.88
2p7jB01 78.86 Vibrio parahaemolyticusPutative sensory box/GGDEF family protein 1.20.5.170 39 5 60 2.41 3.95
1hf9A00 78.73 Protein homodimerization activityNegative regulation of hydrolase activityATPase inhibitor activityBos taurusATPase binding 1.20.5.500 41 9 64 2.36 3.68
2zjsE00 78.65 Protein exportBacterial secretion systemThermus thermophilus HB8Preprotein translocase subunit secEPreprotein translocase subunit SecE 1.20.5.1030 46 8 62 2.26 3.62
1u57A00 78.65 Human immunodeficiency virus type 1 lw12.3 isolateGag polyprotein 1.20.5.760 48 10 70 2.14 3.04
1llmD02 77.93 Early growth response protein 1Prion diseasesPositive regulation of RNA polymerase II transcriptional preinitiation complex assemblyResponse to insulin stimulusNegative regulation of transcription from RNA polymerase II promoter 3.30.160.60 55 3 67 2.99 4.45
1a2xB00 77.83 Troponin I, fast skeletal muscleTroponin T bindingOryctolagus cuniculus 1.20.5.420 31 9 46 0.96 2.05
1uixA00 77.64 Chemokine signaling pathwayRho-associated, coiled-coil containing protein kinase [EC:2.7.11.1]Leukocyte transendothelial migrationWnt signaling pathwayTGF-beta signaling pathway 1.20.5.730 68 12 61 3.06 4.95
1m7lA00 77.53 Negative regulation of T cell proliferationProtein bindingInnate immune responseLung alveolus developmentEndocytic vesicle 1.20.5.360 40 2 62 2.44 3.90
2v4hB00 77.35 Mus musculusNF-kappa-B essential modulatorActivation of NF-kappaB-inducing kinase activityB cell homeostasis 1.20.5.990 91 12 46 1.99 4.31
1d7mA00 77.03 Cortexillin-1Response to bacteriumProtein homodimerization activityActin filament bundle assemblyActin filament network formation 1.20.5.1050 101 15 58 2.58 4.42
2hr3A01 76.90 Probable transcriptional regulatorPseudomonas aeruginosa 1.20.5.420 30 10 46 1.95 4.16
1rh5B00 76.27 Protein transport protein SEC61 subunit gamma and related proteinsProtein exportMethanocaldococcus jannaschiiPreprotein translocase subunit secE 1.20.5.820 56 0 48 2.14 4.42
1piqA00 76.17 NucleusPositive regulation of RNA polymerase II transcriptional preinitiation complex assemblyGeneral control protein GCN4General control protein GCN4Specific RNA polymerase II transcription factor activity 1.20.5.170 31 3 48 1.69 3.49
1fdoA05 75.02 Methane metabolismMetabolic pathwaysGlyoxylate and dicarboxylate metabolismFormate dehydrogenase HFormate dehydrogenase, alpha subunit [EC:1.2.1.2] 1.20.5.460 27 14 42 1.39 3.29
2p10B02 71.61 Mesorhizobium lotiMll9387 protein 1.20.5.460 26 11 40 1.27 3.13
1ozhA03 71.43 Acetolactate synthase, catabolicKlebsiella pneumoniae 1.20.5.740 24 12 37 1.65 4.40
2oarE02 71.41 Large conductance mechanosensitive channel, MscL familyLarge-conductance mechanosensitive channelMycobacterium tuberculosis H37Ra 1.20.5.220 22 0 34 1.20 3.49
1mqsB00 69.38 Vesicle fusionSyntaxin 5SNAP receptor activityER to Golgi vesicle-mediated transportRetrograde vesicle-mediated transport, Golgi to ER 1.20.5.460 26 3 40 1.66 4.09
3c8vA04 67.36 Desulfovibrio desulfuricans subsp. desulfuricans str. G20Putative uncharacterized protein 1.20.5.510 19 10 29 0.90 3.03
2oarA02 67.16 Large conductance mechanosensitive channel, MscL familyLarge-conductance mechanosensitive channelMycobacterium tuberculosis H37Ra 1.20.5.220 17 11 26 0.39 1.47
2qiwA02 63.98 Corynebacterium glutamicumPEP phosphonomutase and related enzymes 1.20.5.510 18 16 28 1.10 3.91
1mslA02 62.80 1.20.5.220 18 5 28 1.31 4.66
1d66B02 60.18 Regulatory protein GAL4NucleusSequence-specific DNA binding transcription factor activityTranscription activator activityPositive regulation of transcription by galactose 1.20.5.640 15 13 23 0.49 2.09
1mkmA02 58.00 Thermotoga maritimaTranscriptional regulator, IclR family 1.20.5.640 14 14 21 0.67 3.06
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Displaying entries 1 to 55 (page 1 of 1)


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Domain ATOM Sequence 

>pdb|1gd2F00
EPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK
BLAST against CATH

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Domain COMBS Sequence 

>pdb|1gd2F00
RKNSDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK
BLAST against CATH

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Domain History Events (3)

Set cath from cathlist by auto on 05 Mar 2006 18:17

This domain was assigned by cathlist2DB and was parsed from the cath list "/usr/local/cvs/source/lists/CathList"

Flow stage update by auto on 05 Mar 2006 18:17

This domain was assigned by cathlist2DB and was parsed from the cath list "/usr/local/cvs/source/lists/CathList"

Insertion by auto on 05 Mar 2006 14:39

PDB chopped based on information from the domall file "/usr/local/cvs/source/lists/CathDomall"