PDB entry 6epz

View 6epz on RCSB PDB site
Description: structure of the periplasmic binding protein melb (atu4661) in complex with melibiose from agrobacterium fabrum c58
Deposited on 2017-10-12, released 2018-04-11
The last revision was dated 2020-07-29, with a file datestamp of 2020-06-29.
Experiment type: XRAY
Resolution: 1.8 Å
R-factor: N/A
AEROSPACI score: 0.45 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Periplasmic alpha-galactoside-binding protein
    Species: Rhizobium radiobacter [TaxId:358]
    Gene: SY94_4618
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A083ZM57 (Start-676)
      • expression tag (677-678)
  • Chain 'B':
    Compound: Periplasmic alpha-galactoside-binding protein
    Species: Rhizobium radiobacter [TaxId:358]
    Gene: SY94_4618
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A083ZM57 (Start-676)
      • expression tag (677)
  • Chain 'C':
    Compound: Periplasmic alpha-galactoside-binding protein
    Species: Rhizobium radiobacter [TaxId:358]
    Gene: SY94_4618
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A083ZM57 (Start-676)
      • expression tag (677-678)
  • Chain 'D':
    Compound: Periplasmic alpha-galactoside-binding protein
    Species: Rhizobium radiobacter [TaxId:358]
    Gene: SY94_4618
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A083ZM57 (Start-676)
      • expression tag (677)
  • Heterogens: MG, EDO, NA, CL, PEG, HOH

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6epzA (A:)
mialsanafetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklp
plkerlpeeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsec
ltrtaplfqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywe
davvdpnvsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgps
hilkpqhpkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdek
gqqlpylnevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgp
rligynlqmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftai
ypggissgtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveit
llvnngyatdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelss
vvqnteqlapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyq
kvytqnlytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkye
lfpqqlpgkpgeggpinhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6epzA (A:)
afetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklpplkerlp
eeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsecltrtapl
fqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywedavvdpn
vsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgpshilkpqh
pkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdekgqqlpyl
nevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgprligynl
qmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftaiypggiss
gtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveitllvnngy
atdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelssvvqnteq
lapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyqkvytqnl
ytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkyelfpqqlp
gkpgeggpinhh

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6epzB (B:)
mialsanafetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklp
plkerlpeeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsec
ltrtaplfqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywe
davvdpnvsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgps
hilkpqhpkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdek
gqqlpylnevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgp
rligynlqmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftai
ypggissgtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveit
llvnngyatdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelss
vvqnteqlapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyq
kvytqnlytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkye
lfpqqlpgkpgeggpinhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6epzB (B:)
afetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklpplkerlp
eeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsecltrtapl
fqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywedavvdpn
vsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgpshilkpqh
pkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdekgqqlpyl
nevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgprligynl
qmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftaiypggiss
gtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveitllvnngy
atdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelssvvqnteq
lapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyqkvytqnl
ytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkyelfpqqlp
gkpgeggpinh

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6epzC (C:)
mialsanafetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklp
plkerlpeeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsec
ltrtaplfqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywe
davvdpnvsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgps
hilkpqhpkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdek
gqqlpylnevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgp
rligynlqmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftai
ypggissgtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveit
llvnngyatdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelss
vvqnteqlapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyq
kvytqnlytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkye
lfpqqlpgkpgeggpinhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6epzC (C:)
nafetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklpplkerl
peeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsecltrtap
lfqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywedavvdp
nvsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgpshilkpq
hpkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdekgqqlpy
lnevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgprligyn
lqmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftaiypggis
sgtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveitllvnng
yatdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelssvvqnte
qlapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyqkvytqn
lytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkyelfpqql
pgkpgeggpinhh

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6epzD (D:)
mialsanafetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklp
plkerlpeeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsec
ltrtaplfqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywe
davvdpnvsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgps
hilkpqhpkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdek
gqqlpylnevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgp
rligynlqmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftai
ypggissgtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveit
llvnngyatdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelss
vvqnteqlapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyq
kvytqnlytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkye
lfpqqlpgkpgeggpinhhhhhh

    Sequence, based on observed residues (ATOM records):
    >6epzD (D:)
afetttppeppqfpaegkinyvardtilefkalpsysepdwitekfekagklpplkerlp
eeplvyktgnmpdgvgvygdtmrhvvggrpegwnyiagqsqgwggidialsecltrtapl
fqvdakdteplpnlakswewsedghtltmhlvkgakwsdgeafnaddvmfywedavvdpn
vsplgggaspeafgegttlkkiddytvewtfkaafpkqylytmaypsfcpgpshilkpqh
pkyskntynqfknafppeymnmpvmgawvpvsyrpddlivlrrnpyywkvdekgqqlpyl
nevhyklstwadrdvqavagsgdfsnleqpenfvaslkraadpnaparlafgprligynl
qmnfsangwgnpdergqairelnrnevfrqavtsaldrkaigdslvkgpftaiypggiss
gtsfydrastvyypfnlegakaalasiglkdtdgdgflnfpketlggrnveitllvnngy
atdkslaeglvgqmaklglrvvihsldsnqrdaahyggqfdwlvrrnstelssvvqnteq
lapvgprtswnhrspegkeldlmpfekemadivrkfissqdnaeradlmkqyqkvytqnl
ytiglteypgalivnkrfsnvpqgtpifmfnwaedaiirerlwvaadkqgkyelfpqqlp
gkpgeggpinh