2B4J | Genus

Total Genus 34

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	34
sequence length	82
structure length	82
Chain Sequence	GSSMDSRLQRIHAEIKNSLKIDNLDVNRCIEALDELASLQVTMQQAQKHTEMITTLKKIRRFKVSQVIMEKSTMLYNKFKNM

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

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The Resolver thinks Pdb

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reading 82 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

82 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 16 ms

Adding embedded #jmolscript: select ({0:81});backbone only;select *;

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

Genus data interpretation

molecule tags	Viral protein, recombination
source organism	Human immunodeficiency virus 1
publication title	Structural basis for the recognition between HIV-1 integrase and transcriptional coactivator p75 pubmed doi rcsb
molecule keywords	Integrase (IN)
total genus	34
structure length	82
sequence length	82
chains with identical sequence	D
ec nomenclature
pdb deposition date	2005-09-24

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
1.20.930.10	Mainly Alpha	Up-down Bundle	Transcription Elongation Factor S-II; Chain A	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70	2b4jC00

2XPNA 1WJTA 1EO0A 2N3AB 2XPOA 2B4JC 2XPPA 3OAKA 1Z9EA 3NFQA 3HPHE 2XPLA 3O8ZA 3HPGG 3U88C 3F9KC
chains in the Genus database with same CATH superfamily

3D7GA 3BI1A 4NGNA 4P44A 2CBLA 3BHXA 3SJXA 2DLAA 1B47A 1YVHA 5D29A 3OAKA 4A4CA 3PFVA 4NGPA 2XEFA 2UV8G 3BUOB 4NGRA 4W9YA 3KASA 2XPOA 4P4IA 4A4BA 3OP0A 3S9NA 4NGTA 4NGSA 2B4JC 2XEGA 4BPXB 4BPUB 4RR2B 1FBVA 2XPLA 3VROA 2Y1NA 4BTFA 3OB1B 2XPPA 4OC2A 2XEJA 3BUWB 2Y1MA 3OB2B 4P4BA 5ELYA 3NFQA 3BUMB 4JZ0A 3BXMA 3FEDA 5J3XA 3SJEA 3VRQA 1EO0A 3SJGA 3IWWA 2XEIA 5F09A 3HPHE 4OC4A 1Z8LA 3VRNA 5F13A 4NGMA 3SJFA 3HMJG 4NGQA 5BY0A 3FEEA 2PVVA 4BPWB 2XPNA 3FECA 4OC3A 3VRPA 3RBUA 3D7HA 5HKZA 3S9LA 3BI0A 4OC0A 3S9MA 5HKWA 2C6CA 3BUXB 3PLFB 2JBKA 4MCSA 4P4JA 4X3RA 3HPGG 3BUNB 3ZNIA 3F9KC 3D7FA 2C6GA 4MCPA 1CX8A 4OC5A 4P4DA 3D7DA 2JBJA 1DE4C 3FF3A 2OOTA 2CIJA 2C6PA 1WJTA 4P4EA 5AXIA 2N3AB 4MCQA 3PT1A 3U88C 4GPLB 3VRRA 4OC1A 4P45A 5HKYA 3VGOA 2OR4A 4JYWA 4OMEA 4LQGA 1Z9EA 2VKZG 3O8ZA 4P4FA 2PVWA 4MCRA
chains in the Genus database with same CATH topology

2XPNA 1WJTA 1EO0A 2N3AB 2XPOA 2B4JC 2XPPA 3OAKA 1Z9EA 3NFQA 3HPHE 2XPLA 3O8ZA 3HPGG 3U88C 3F9KC
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 2XPN A;  1WJT A;  1EO0 A;  2N3A B;  2XPO A;  2B4J C;  2XPP A;  3OAK A;  1Z9E A;  3NFQ A;  3HPH E;  2XPL A;  3O8Z A;  3HPG G;  3U88 C;  3F9K C; 
#chains in the Genus database with same CATH topology
 3D7G A;  3BI1 A;  4NGN A;  4P44 A;  2CBL A;  3BHX A;  3SJX A;  2DLA A;  1B47 A;  1YVH A;  5D29 A;  3OAK A;  4A4C A;  3PFV A;  4NGP A;  2XEF A;  2UV8 G;  3BUO B;  4NGR A;  4W9Y A;  3KAS A;  2XPO A;  4P4I A;  4A4B A;  3OP0 A;  3S9N A;  4NGT A;  4NGS A;  2B4J C;  2XEG A;  4BPX B;  4BPU B;  4RR2 B;  1FBV A;  2XPL A;  3VRO A;  2Y1N A;  4BTF A;  3OB1 B;  2XPP A;  4OC2 A;  2XEJ A;  3BUW B;  2Y1M A;  3OB2 B;  4P4B A;  5ELY A;  3NFQ A;  3BUM B;  4JZ0 A;  3BXM A;  3FED A;  5J3X A;  3SJE A;  3VRQ A;  1EO0 A;  3SJG A;  3IWW A;  2XEI A;  5F09 A;  3HPH E;  4OC4 A;  1Z8L A;  3VRN A;  5F13 A;  4NGM A;  3SJF A;  3HMJ G;  4NGQ A;  5BY0 A;  3FEE A;  2PVV A;  4BPW B;  2XPN A;  3FEC A;  4OC3 A;  3VRP A;  3RBU A;  3D7H A;  5HKZ A;  3S9L A;  3BI0 A;  4OC0 A;  3S9M A;  5HKW A;  2C6C A;  3BUX B;  3PLF B;  2JBK A;  4MCS A;  4P4J A;  4X3R A;  3HPG G;  3BUN B;  3ZNI A;  3F9K C;  3D7F A;  2C6G A;  4MCP A;  1CX8 A;  4OC5 A;  4P4D A;  3D7D A;  2JBJ A;  1DE4 C;  3FF3 A;  2OOT A;  2CIJ A;  2C6P A;  1WJT A;  4P4E A;  5AXI A;  2N3A B;  4MCQ A;  3PT1 A;  3U88 C;  4GPL B;  3VRR A;  4OC1 A;  4P45 A;  5HKY A;  3VGO A;  2OR4 A;  4JYW A;  4OME A;  4LQG A;  1Z9E A;  2VKZ G;  3O8Z A;  4P4F A;  2PVW A;  4MCR A; 
#chains in the Genus database with same CATH homology
 2XPN A;  1WJT A;  1EO0 A;  2N3A B;  2XPO A;  2B4J C;  2XPP A;  3OAK A;  1Z9E A;  3NFQ A;  3HPH E;  2XPL A;  3O8Z A;  3HPG G;  3U88 C;  3F9K C;

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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2B4JC

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization