Structure of PDB 2vtb Chain B Binding Site BS01

Receptor Information

>2vtb Chain B (length=491) Species: 3702 (Arabidopsis thaliana)

DHIHRVPALTEEEIDSVAIKTFERYALPSSSSVKRKGKGVTILWFRNDLR
VLDNDALYKAWSSSDTILPVYCLDPRLFHTTHFFNFPKTGALRGGFLMEC
LVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTVFAHKETCSEEVD
VERLVNQGLKRVGNSTKLELIWGSTMYHKDDLPFDVFDLPDVYTQFRKSV
EAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKLGVEPQEVTRGMRFVGG
ESAGVGRVFEYFWKKDLLKVYKETRNGMLGPDYSTKFSPWLAFGCISPRF
IYEEVQRYEKERVANNSTYWVLFELIWRDYFRFLSIKCGNSLFHLGGPRN
VNGKWSQDQKLFESWRDAKTGYPLIDANMKELSTTGFMSNRGRQIVCSFL
VRDMGLDWRMGAEWFETCLLDYDPCSNYGNWTYGAGVNDPRYFSIPKQAQ
NYDPEGEYVAFWLQQLRRLPKEKRHWPGRLMYMDTVVPLKH

Ligand information

>2vtb Chain H (length=5)

ttttt

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2vtb Recognition and Repair of Uv Lesions in Loop Structures of Duplex DNA by Dash-Type Cryptochrome.
• Resolution: 2.01 Å
• Binding residue (original residue number in PDB): V193 T195 R276 E325 W328 N391 R392 Q395 Y434 Y447 F448 S449 K452 Q453 H496
• Binding residue (residue number reindexed from 1): V192 T194 R275 E324 W327 N390 R391 Q394 Y433 Y442 F443 S444 K447 Q448 H491

Enzymatic activity

• Catalytic site (original residue number in PDB): E325 W328 W356 N391 W409 W432
• Catalytic site (residue number reindexed from 1): E324 W327 W355 N390 W408 W431
• Enzyme Commision number: 4.1.99.3: deoxyribodipyrimidine photo-lyase.

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003904 deoxyribodipyrimidine photo-lyase activity
• GO:0003913 DNA photolyase activity
• GO:0005524 ATP binding
• GO:0009881 photoreceptor activity
• GO:0071949 FAD binding

Biological Process

• GO:0000719 photoreactive repair
• GO:0006139 nucleobase-containing compound metabolic process
• GO:0006281 DNA repair

Cellular Component

• GO:0005739 mitochondrion
• GO:0009507 chloroplast

External links

• PDB: RCSB:2vtb, PDBe:2vtb, PDBj:2vtb
• PDBsum: 2vtb
• PubMed: 19074258
• UniProt: Q84KJ5|CRYD_ARATH Cryptochrome DASH, chloroplastic/mitochondrial (Gene Name=CRYD)