PDB entry 5f2v

View 5f2v on RCSB PDB site
Description: Crystal structure of the small alarmone synthethase 1 from Bacillus subtilis bound to AMPCPP
Class: transferase
Keywords: (p)ppGpp, alarmone, stringent response, allosteric regulator, transferase
Deposited on 2015-12-02, released 2015-12-16
The last revision prior to the SCOPe 2.08 freeze date was dated 2015-12-16, with a file datestamp of 2015-12-11.
Experiment type: XRAY
Resolution: 2.8 Å
R-factor: N/A
AEROSPACI score: 0.16 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'O':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vo_
  • Chain 'P':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vp_
  • Chain 'Q':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vq_
  • Chain 'R':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vr_
  • Chain 'S':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vs_
  • Chain 'T':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vt_
  • Chain 'U':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vu_
  • Chain 'V':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vv_
  • Chain 'W':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vw_
  • Chain 'X':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vx_
  • Chain 'Y':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vy_
  • Chain 'Z':
    Compound: GTP pyrophosphokinase YjbM
    Species: Bacillus subtilis PY79 [TaxId:1415167]
    Gene: yjbM, BSU11600
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d5f2vz_
  • Heterogens: APC, MG, HOH

PDB Chain Sequences:

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >5f2vO (O:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vO (O:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdgyrsyhlvvlyplqtvsge
khvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirge
vqea

  • Chain 'P':
    Sequence, based on SEQRES records: (download) 
    >5f2vP (P:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vP (P:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrsyhlvvlyplqtvsgek
hvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgev
qea

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >5f2vQ (Q:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vQ (Q:)
kqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksip
lheietmqdiaglrimcqfvddiqivkemlfarkdftvrsyhlvvlyplqtvsgekhvlv
eiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevqea

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >5f2vR (R:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vR (R:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdgyrsyhlvvlyplqtvsge
khvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirge
vqea

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >5f2vS (S:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vS (S:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdrsyhlvvlyplqtvsgekh
vlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevq
ea

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >5f2vT (T:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vT (T:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqea

  • Chain 'U':
    Sequence, based on SEQRES records: (download) 
    >5f2vU (U:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vU (U:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdesgyrsyhlvvlyplqtvs
gekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseir
gevqea

  • Chain 'V':
    Sequence, based on SEQRES records: (download) 
    >5f2vV (V:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vV (V:)
dkqwerflvpyrqaveelkvklkgirtlyeyedhspiefvtgrvkpvasilekarrksip
lheietmqdiaglrimcqfvddiqivkemlfarkdftvvrsyhlvvlyplqtvsgekhvl
veiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevqea

  • Chain 'W':
    Sequence, based on SEQRES records: (download) 
    >5f2vW (W:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vW (W:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiasyhlvvlyplqtv
sgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemsei
rgevqea

  • Chain 'X':
    Sequence, based on SEQRES records: (download) 
    >5f2vX (X:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vX (X:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvrsyhlvvlyplqtvsgekhv
lveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevqe
a

  • Chain 'Y':
    Sequence, based on SEQRES records: (download) 
    >5f2vY (Y:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vY (Y:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqsyhlvvlyplqtvsgekh
vlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevq
ea

  • Chain 'Z':
    Sequence, based on SEQRES records: (download) 
    >5f2vZ (Z:)
dkqwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksi
plheietmqdiaglrimcqfvddiqivkemlfarkdftvvdqrdyiaehkesgyrsyhlv
vlyplqtvsgekhvlveiqirtlamnfwatiehslnykysgnipekvklrlqraseaasr
ldeemseirgevqeaqaafsrkkkgseqq

    Sequence, based on observed residues (ATOM records): (download) 
    >5f2vZ (Z:)
qwerflvpyrqaveelkvklkgirtlyeyeddhspiefvtgrvkpvasilekarrksipl
heietmqdiaglrimcqfvddiqivkemlfarkdftvvrsyhlvvlyplqtvsgekhvlv
eiqirtlamnfwatiehslnykysgnipekvklrlqraseaasrldeemseirgevqea