4BZCA

Crystal structure of the tetrameric dgtp-bound wild type samhd1 catalytic core
Total Genus 166
50100150200250300350400450020406080100120140160
Genus TraceResidueGenus

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
166
sequence length
486
structure length
476
Chain Sequence
TMKVINDPIHGHIELHPLLVRIIDTPQFQRLRYIKQLGGGYYVFPGASHNRFEHSLGVGYLAGCLVHALGEKQPELQISERDVLCVQIAGLCHDLGHGPFSHMFDGRFIPLARPEVKWTHEQGSVMMFEHLINSNGIKPVMEQYGLIPEEDICFIKEQIVGPLEDSLWPYKGRPENKSFLYEIVSNKRNGIDVDKWDYFARDCHHLGIQNNFDYKRFIKFARVCEVDNELRICARDKEVGNLYDMFHTRNSLHRRAYQHKVGNIIDTMITDAFLKADDYIEITGAGGKKYRISTAIDDMEAYTKLTDNIFLEILYSTDPKLKDAREILKQIEYRNLFKYVGETQPTGQDYESLPKEVASAKPKVLLDVKLKAEDFIVDVINMDYGMQEKNPIDHVSFYCKTAPNRAIRITKNQVSQLLPEKFAEQLIRVYCKKVDRKSLYAARQYFVQWCADRNFTKPQDGDVIAPLITPQKKEWN
50100150200250300350400450400300200100
050100150Genus Matrix

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
EMPTYTII1 (211-214)TI2 (148-151)S1 (116-120)S2 (124-128)3H2 (151-155)AH3 (164-185)TI3 (157-160)TIV2 (155-158)TIV3 (158-161)3H3 (187-189)TI5 (226-229)AH4 (193-206)TI7 (393-396)AH7 (250-257)TI4 (207-210)AH6 (233-248)S5 (399-400)AH12 (377-393)AH14 (424-432)AH8 (261-273)TIV6 (303-306)TVIII1 (283-286)3H4 (292-298)TIV5 (299-302)TVIII3 (300-303)AH9 (310-323)TIV7 (304-307)AH10 (331-337)S3 (338-343)S7 (455-460)TIV8 (342-345)3H5 (353-355)S4 (346-352)AH11 (356-373)AH15 (438-450)S6 (406-407)TI8 (394-397)3H6 (402-404)TI9 (408-411)AH13 (416-421)TIV9 (462-465)AH16 (474-482)AH1 (130-136)AH2 (139-142)AH5 (215-225)TIV4 (287-290)TVIII2 (288-291)TI6 (373-376)3H7 (412-414)TIV1 (120-123)TI11 (435-438)3H1 (143-146)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Homo sapiens
publication title Mechanism of Allosteric Activation of Samhd1 by Dgtp
pubmed doi rcsb
molecule keywords DEOXYNUCLEOSIDE TRIPHOSPHATE TRIPHOSPHOHYDROLASE SAMHD1
total genus 166
structure length 476
sequence length 486
chains with identical sequence B, C, D
ec nomenclature ec 3.1.5.-:
pdb deposition date 2013-07-25

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01966 HD HD domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.3210.10 Mainly Alpha Orthogonal Bundle Hypothetical protein af1432 Hypothetical protein af1432 4bzcA01
1VJ7A 3IRHA 4MZ7A 2O6IA 5TK9A 3BG2A 1YOYA 3HI0A 4LRLA 4TO0A 4ZWGA 4TNYA 4TO5A 4QG0A 3TMCA 5AO2A 3RF0A 4RXPA 4RXQA 5AO4A 3P3QA 4TNPA 3KH1A 4QFYA 4TO2A 4TO3A 4TO4A 3NR1A 4MCWA 4L1JB 2OGIA 4L1JA 2PARA 4L7EA 4ZWEA 4Q7HA 5TKAA 5TK8A 2O08A 3MEMA 4ME4A 3TM8A 2PQ7A 1XX7A 1YNBA 4TNZA 3CCGA 3HC1A 4TO1A 3TMBA 2DQBA 3MZOA 3NQWA 5AO1A 4QG1A 4TO6A 4TNRA 4TNQA 2GZ4A 4TNXA 4RXSA 4BZBA 4N71A 2PAQA 4BZCA 5AO0A 4QG4A 4MLMA 4QG2A 4L7WA 4QFXA 2FLOA 2CQZA 5TK6A 5TK7A 4X9EA 4RXOA 2PAUA 4DMBA 4QFZA 2Q14A 3TMDA 5AO3A 4MLNA 1VQRA 4RXRA 3U1NA 4N6WA 4MDZA 4R8ZA 3M1TA 2PGSA 3LJXA 4XDSA 3I7AA 1U6ZA 2HEKA
chains in the Genus database with same CATH superfamily
1VJ7A 3IRHA 4MZ7A 2O6IA 5TK9A 3BG2A 1YOYA 3HI0A 4LRLA 4TO0A 4ZWGA 4TNYA 4TO5A 4QG0A 3TMCA 3SK9A 3KQ5A 5AO2A 3RF0A 4RXPA 4RXQA 5AO4A 4QQXA 3P3QA 4TNPA 3KH1A 4QFYA 4TO2A 4TO3A 4TO4A 3NR1A 4MCWA 3GW7A 4L1JB 2OGIA 4L1JA 2PARA 4L7EA 4ZWEA 4Q7HA 5TKAA 5TK8A 2O08A 3MEMA 4ME4A 3TM8A 2PQ7A 1XX7A 4QQYA 1YNBA 4TNZA 3CCGA 3HC1A 4TO1A 3TMBA 2DQBA 4QQWA 3MZOA 3NQWA 5AO1A 4QG1A 4TO6A 4TNRA 4TNQA 2GZ4A 4TNXA 4RXSA 4BZBA 4N71A 2PAQA 4BZCA 5AO0A 4QG4A 4MLMA 4QG2A 4L7WA 4QFXA 2FLOA 2CQZA 5TK6A 5TK7A 4X9EA 4RXOA 2PAUA 4DMBA 4QFZA 2Q14A 4Q2CA 3TMDA 5AO3A 4MLNA 1VQRA 4Q2DA 4RXRA 3SKDA 4N6WA 3U1NA 4MDZA 4R8ZA 3M1TA 3S4LA 2PGSA 3LJXA 4XDSA 3I7AA 4QQZA 1U6ZA 2HEKA
chains in the Genus database with same CATH topology
1VJ7A 3IRHA 4MZ7A 2O6IA 5TK9A 3BG2A 1YOYA 3HI0A 4LRLA 4TO0A 4ZWGA 4TNYA 4TO5A 4QG0A 3TMCA 3SK9A 3KQ5A 5AO2A 3RF0A 4RXPA 4RXQA 5AO4A 4QQXA 3P3QA 4TNPA 3KH1A 4QFYA 4TO2A 4TO3A 4TO4A 3NR1A 4MCWA 3GW7A 4L1JB 2OGIA 4L1JA 2PARA 4L7EA 4ZWEA 4Q7HA 5TKAA 5TK8A 2O08A 3MEMA 4ME4A 3TM8A 2PQ7A 1XX7A 4QQYA 1YNBA 4TNZA 3CCGA 3HC1A 4TO1A 3TMBA 2DQBA 4QQWA 3MZOA 3NQWA 5AO1A 4QG1A 4TO6A 4TNRA 4TNQA 2GZ4A 4TNXA 4RXSA 4BZBA 4N71A 2PAQA 4BZCA 5AO0A 4QG4A 4MLMA 4QG2A 4L7WA 4QFXA 2FLOA 2CQZA 5TK6A 5TK7A 4X9EA 4RXOA 2PAUA 4DMBA 4QFZA 2Q14A 4Q2CA 3TMDA 5AO3A 4MLNA 1VQRA 4Q2DA 4RXRA 3SKDA 4N6WA 3U1NA 4MDZA 4R8ZA 3M1TA 3S4LA 2PGSA 3LJXA 4XDSA 3I7AA 4QQZA 1U6ZA 2HEKA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1VJ7 A;  3IRH A;  4MZ7 A;  2O6I A;  5TK9 A;  3BG2 A;  1YOY A;  3HI0 A;  4LRL A;  4TO0 A;  4ZWG A;  4TNY A;  4TO5 A;  4QG0 A;  3TMC A;  5AO2 A;  3RF0 A;  4RXP A;  4RXQ A;  5AO4 A;  3P3Q A;  4TNP A;  3KH1 A;  4QFY A;  4TO2 A;  4TO3 A;  4TO4 A;  3NR1 A;  4MCW A;  4L1J B;  2OGI A;  4L1J A;  2PAR A;  4L7E A;  4ZWE A;  4Q7H A;  5TKA A;  5TK8 A;  2O08 A;  3MEM A;  4ME4 A;  3TM8 A;  2PQ7 A;  1XX7 A;  1YNB A;  4TNZ A;  3CCG A;  3HC1 A;  4TO1 A;  3TMB A;  2DQB A;  3MZO A;  3NQW A;  5AO1 A;  4QG1 A;  4TO6 A;  4TNR A;  4TNQ A;  2GZ4 A;  4TNX A;  4RXS A;  4BZB A;  4N71 A;  2PAQ A;  4BZC A;  5AO0 A;  4QG4 A;  4MLM A;  4QG2 A;  4L7W A;  4QFX A;  2FLO A;  2CQZ A;  5TK6 A;  5TK7 A;  4X9E A;  4RXO A;  2PAU A;  4DMB A;  4QFZ A;  2Q14 A;  3TMD A;  5AO3 A;  4MLN A;  1VQR A;  4RXR A;  3U1N A;  4N6W A;  4MDZ A;  4R8Z A;  3M1T A;  2PGS A;  3LJX A;  4XDS A;  3I7A A;  1U6Z A;  2HEK A; 
#chains in the Genus database with same CATH topology
 1VJ7 A;  3IRH A;  4MZ7 A;  2O6I A;  5TK9 A;  3BG2 A;  1YOY A;  3HI0 A;  4LRL A;  4TO0 A;  4ZWG A;  4TNY A;  4TO5 A;  4QG0 A;  3TMC A;  3SK9 A;  3KQ5 A;  5AO2 A;  3RF0 A;  4RXP A;  4RXQ A;  5AO4 A;  4QQX A;  3P3Q A;  4TNP A;  3KH1 A;  4QFY A;  4TO2 A;  4TO3 A;  4TO4 A;  3NR1 A;  4MCW A;  3GW7 A;  4L1J B;  2OGI A;  4L1J A;  2PAR A;  4L7E A;  4ZWE A;  4Q7H A;  5TKA A;  5TK8 A;  2O08 A;  3MEM A;  4ME4 A;  3TM8 A;  2PQ7 A;  1XX7 A;  4QQY A;  1YNB A;  4TNZ A;  3CCG A;  3HC1 A;  4TO1 A;  3TMB A;  2DQB A;  4QQW A;  3MZO A;  3NQW A;  5AO1 A;  4QG1 A;  4TO6 A;  4TNR A;  4TNQ A;  2GZ4 A;  4TNX A;  4RXS A;  4BZB A;  4N71 A;  2PAQ A;  4BZC A;  5AO0 A;  4QG4 A;  4MLM A;  4QG2 A;  4L7W A;  4QFX A;  2FLO A;  2CQZ A;  5TK6 A;  5TK7 A;  4X9E A;  4RXO A;  2PAU A;  4DMB A;  4QFZ A;  2Q14 A;  4Q2C A;  3TMD A;  5AO3 A;  4MLN A;  1VQR A;  4Q2D A;  4RXR A;  3SKD A;  4N6W A;  3U1N A;  4MDZ A;  4R8Z A;  3M1T A;  3S4L A;  2PGS A;  3LJX A;  4XDS A;  3I7A A;  4QQZ A;  1U6Z A;  2HEK A; 
#chains in the Genus database with same CATH homology
 1VJ7 A;  3IRH A;  4MZ7 A;  2O6I A;  5TK9 A;  3BG2 A;  1YOY A;  3HI0 A;  4LRL A;  4TO0 A;  4ZWG A;  4TNY A;  4TO5 A;  4QG0 A;  3TMC A;  3SK9 A;  3KQ5 A;  5AO2 A;  3RF0 A;  4RXP A;  4RXQ A;  5AO4 A;  4QQX A;  3P3Q A;  4TNP A;  3KH1 A;  4QFY A;  4TO2 A;  4TO3 A;  4TO4 A;  3NR1 A;  4MCW A;  3GW7 A;  4L1J B;  2OGI A;  4L1J A;  2PAR A;  4L7E A;  4ZWE A;  4Q7H A;  5TKA A;  5TK8 A;  2O08 A;  3MEM A;  4ME4 A;  3TM8 A;  2PQ7 A;  1XX7 A;  4QQY A;  1YNB A;  4TNZ A;  3CCG A;  3HC1 A;  4TO1 A;  3TMB A;  2DQB A;  4QQW A;  3MZO A;  3NQW A;  5AO1 A;  4QG1 A;  4TO6 A;  4TNR A;  4TNQ A;  2GZ4 A;  4TNX A;  4RXS A;  4BZB A;  4N71 A;  2PAQ A;  4BZC A;  5AO0 A;  4QG4 A;  4MLM A;  4QG2 A;  4L7W A;  4QFX A;  2FLO A;  2CQZ A;  5TK6 A;  5TK7 A;  4X9E A;  4RXO A;  2PAU A;  4DMB A;  4QFZ A;  2Q14 A;  4Q2C A;  3TMD A;  5AO3 A;  4MLN A;  1VQR A;  4Q2D A;  4RXR A;  3SKD A;  4N6W A;  3U1N A;  4MDZ A;  4R8Z A;  3M1T A;  3S4L A;  2PGS A;  3LJX A;  4XDS A;  3I7A A;  4QQZ A;  1U6Z A;  2HEK A; 
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