PDB entry 2vl4

View 2vl4 on RCSB PDB site
Description: structural and biochemical evidence for a boat-like transition state in beta-mannosidases
Class: hydrolase
Keywords: linear free energy relationship, hydrolase, transition state mimic, mannosidase, glycoside hydrolase
Deposited on 2008-01-08, released 2008-04-01
The last revision prior to the SCOP 1.75 freeze date was dated 2008-04-22, with a file datestamp of 2008-04-18.
Experiment type: XRAY
Resolution: 1.9 Å
R-factor: 0.16454
AEROSPACI score: 0.59 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: beta-mannosidase
    Species: BACTEROIDES THETAIOTAOMICRON
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8AAK6 (Start-838)
    • PDB 2VL4
    Domains in SCOP 1.75: d2vl4a1, d2vl4a2, d2vl4a3, d2vl4a4, d2vl4a5
  • Chain 'B':
    Compound: beta-mannosidase
    Species: BACTEROIDES THETAIOTAOMICRON
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8AAK6 (Start-838)
    • PDB 2VL4 (839-End)
    Domains in SCOP 1.75: d2vl4b1, d2vl4b2, d2vl4b3, d2vl4b4, d2vl4b5
  • Heterogens: BR, CL, NOZ, EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2vl4A (A:)
qgndtsevmlldtgwefsqsgtekwmpatvpgtvhqdlishellpnpfygmnekkiqwve
nedweyrtsfivseeqlnrdgiqlifegldtyadvylngslllkadnmfvgytlpvksvl
rkgenhlyiyfhspirqtlpqyasngfnypadndhhekhlsvfsrkapysygwdwgirmv
tsgvwrpvtlrfydiatisdyyvrqlsltdenarlsnelivnqivpqkipaevrvnvsln
gttvtevkqqvtlqpginhitlpaevtnpvrwmpngwgtptlydfsaqiacgdrivaeqs
hriglrtirvvnekdkdgesfyfevngipmfakganyipqdallpnvtteryqtlfrdmk
eanmnmvriwgggtyennlfydladengilvwqdfmfactpypsdptflkrveaeavyni
rrlrnhaslamwcgnneilealkywgfekkftpevyqglmhgydklfrellpstvkefds
drfyvhsspylanwgrpeswgtgdshnwgvwygkkpfesldtdlprfmsefgfqsfpemk
tiaafaapedyqiesevmnahqkssignslirtymerdyiipesfedfvyvglvlqgqgm
rhgleahrrnrpycmgtlywqlndswpvvswssidyygnwkalhyqakrafapvlinpiq
qndslsvylisdrldtmeqmtlemkvvdfdgktlgkkiqvhslevpantskcvyrakldg
wltpedcrrsflklilkdksghqvaesvhffrktkdlqlpptsvsyqmkqtdgkceltlf
ssmlakdifietplqgarysdnffdllpgerkkviitsprikkgeelpvnikhiretyke
hhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2vl4A (A:)
ndtsevmlldtgwefsqsgtekwmpatvpgtvhqdlishellpnpfygmnekkiqwvene
dweyrtsfivseeqlnrdgiqlifegldtyadvylngslllkadnmfvgytlpvksvlrk
genhlyiyfhspirqtlpqyasngfnypadndhhekhlsvfsrkapysygwdwgirmvts
gvwrpvtlrfydiatisdyyvrqlsltdenarlsnelivnqivpqkipaevrvnvslngt
tvtevkqqvtlqpginhitlpaevtnpvrwmpngwgtptlydfsaqiacgdrivaeqshr
iglrtirvvnekdkdgesfyfevngipmfakganyipqdallpnvtteryqtlfrdmkea
nmnmvriwgggtyennlfydladengilvwqdfmfactpypsdptflkrveaeavynirr
lrnhaslamwcgnneilealkywgfekkftpevyqglmhgydklfrellpstvkefdsdr
fyvhsspylanwgrpeswgtgdshnwgvwygkkpfesldtdlprfmsefgfqsfpemkti
aafaapedyqiesevmnahqkssignslirtymerdyiipesfedfvyvglvlqgqgmrh
gleahrrnrpycmgtlywqlndswpvvswssidyygnwkalhyqakrafapvlinpiqqn
dslsvylisdrldtmeqmtlemkvvdfdgktlgkkiqvhslevpantskcvyrakldgwl
tpedcrrsflklilkdksghqvaesvhffrktkdlqlpptsvsyqmkqtdgkceltlfss
mlakdifietplqgarysdnffdllpgerkkviitsprikkeelpvnikhiretyk

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2vl4B (B:)
qgndtsevmlldtgwefsqsgtekwmpatvpgtvhqdlishellpnpfygmnekkiqwve
nedweyrtsfivseeqlnrdgiqlifegldtyadvylngslllkadnmfvgytlpvksvl
rkgenhlyiyfhspirqtlpqyasngfnypadndhhekhlsvfsrkapysygwdwgirmv
tsgvwrpvtlrfydiatisdyyvrqlsltdenarlsnelivnqivpqkipaevrvnvsln
gttvtevkqqvtlqpginhitlpaevtnpvrwmpngwgtptlydfsaqiacgdrivaeqs
hriglrtirvvnekdkdgesfyfevngipmfakganyipqdallpnvtteryqtlfrdmk
eanmnmvriwgggtyennlfydladengilvwqdfmfactpypsdptflkrveaeavyni
rrlrnhaslamwcgnneilealkywgfekkftpevyqglmhgydklfrellpstvkefds
drfyvhsspylanwgrpeswgtgdshnwgvwygkkpfesldtdlprfmsefgfqsfpemk
tiaafaapedyqiesevmnahqkssignslirtymerdyiipesfedfvyvglvlqgqgm
rhgleahrrnrpycmgtlywqlndswpvvswssidyygnwkalhyqakrafapvlinpiq
qndslsvylisdrldtmeqmtlemkvvdfdgktlgkkiqvhslevpantskcvyrakldg
wltpedcrrsflklilkdksghqvaesvhffrktkdlqlpptsvsyqmkqtdgkceltlf
ssmlakdifietplqgarysdnffdllpgerkkviitsprikkgeelpvnikhiretyke
hhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2vl4B (B:)
gndtsevmlldtgwefsqsgtekwmpatvpgtvhqdlishellpnpfygmnekkiqwven
edweyrtsfivseeqlnrdgiqlifegldtyadvylngslllkadnmfvgytlpvksvlr
kgenhlyiyfhspirqtlpqyasngfnypadndhhekhlsvfsrkapysygwdwgirmvt
sgvwrpvtlrfydiatisdyyvrqlsltdenarlsnelivnqivpqkipaevrvnvslng
ttvtevkqqvtlqpginhitlpaevtnpvrwmpngwgtptlydfsaqiacgdrivaeqsh
riglrtirvvnekdkdgesfyfevngipmfakganyipqdallpnvtteryqtlfrdmke
anmnmvriwgggtyennlfydladengilvwqdfmfactpypsdptflkrveaeavynir
rlrnhaslamwcgnneilealkywgfekkftpevyqglmhgydklfrellpstvkefdsd
rfyvhsspylanwgrpeswgtgdshnwgvwygkkpfesldtdlprfmsefgfqsfpemkt
iaafaapedyqiesevmnahqkssignslirtymerdyiipesfedfvyvglvlqgqgmr
hgleahrrnrpycmgtlywqlndswpvvswssidyygnwkalhyqakrafapvlinpiqq
ndslsvylisdrldtmeqmtlemkvvdfdgktlgkkiqvhslevpantskcvyrakldgw
ltpedcrrsflklilkdksghqvaesvhffrktkdlqlpptsvsyqmkqtdgkceltlfs
smlakdifietplqgarysdnffdllpgerkkviitsprikkgeelpvnikhiretykeh
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