PDB entry 2y9d

View 2y9d on RCSB PDB site
Description: Structure of the spliceosomal U4 snRNP core domain
Deposited on 2011-02-13, released 2011-05-11
The last revision was dated 2014-12-10, with a file datestamp of 2014-12-05.
Experiment type: XRAY
Resolution: 3.6 Å
R-factor: 0.27898
AEROSPACI score: 0.05 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: small nuclear ribonucleoprotein-associated proteins b and b'
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPB
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Small nuclear ribonucleoprotein Sm D1
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD1
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Small nuclear ribonucleoprotein Sm D2
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD2
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Small nuclear ribonucleoprotein Sm D3
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD3
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Small nuclear ribonucleoprotein E
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPE
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Small nuclear ribonucleoprotein F
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPF
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Small nuclear ribonucleoprotein G
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPG
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: small nuclear ribonucleoprotein-associated proteins b and b'
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPB
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: Small nuclear ribonucleoprotein Sm D1
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD1
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: Small nuclear ribonucleoprotein Sm D2
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD2
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: Small nuclear ribonucleoprotein Sm D3
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD3
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: Small nuclear ribonucleoprotein E
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPE
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: Small nuclear ribonucleoprotein F
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPF
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: Small nuclear ribonucleoprotein G
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPG
    Database cross-references and differences (RAF-indexed):
  • Chain 'O':
    Compound: small nuclear ribonucleoprotein-associated proteins b and b'
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPB
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    Compound: Small nuclear ribonucleoprotein Sm D1
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD1
    Database cross-references and differences (RAF-indexed):
  • Chain 'Q':
    Compound: Small nuclear ribonucleoprotein Sm D2
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD2
    Database cross-references and differences (RAF-indexed):
  • Chain 'R':
    Compound: Small nuclear ribonucleoprotein Sm D3
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPD3
    Database cross-references and differences (RAF-indexed):
  • Chain 'S':
    Compound: Small nuclear ribonucleoprotein E
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPE
    Database cross-references and differences (RAF-indexed):
  • Chain 'T':
    Compound: Small nuclear ribonucleoprotein F
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPF
    Database cross-references and differences (RAF-indexed):
  • Chain 'U':
    Compound: Small nuclear ribonucleoprotein G
    Species: Homo sapiens [TaxId:9606]
    Gene: SNRPG
    Database cross-references and differences (RAF-indexed):
  • Chain 'V':
    Compound: homo sapiens u4a snrna
    Species: Homo sapiens [TaxId:9606]
    Gene: RNU4A
  • Chain 'X':
    Compound: homo sapiens u4a snrna
    Species: Homo sapiens [TaxId:9606]
    Gene: RNU4A
  • Chain 'Y':
    Compound: homo sapiens u4a snrna
    Species: Homo sapiens [TaxId:9606]
    Gene: RNU4A

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:
    >2y9dA (A:)
mtvgksskmlqhidyrmrcilqdgrifigtfkafdkhmnlilcdcdefrkikpknskqae
reekrvlglvllrgenlvsmtvegpppkdtgiarv

    Sequence, based on observed residues (ATOM records):
    >2y9dA (A:)
sskmlqhidyrmrcilqdgrifigtfkafdkhmnlilcdcdefrkikpknskqaereekr
vlglvllrgenlvsmtvegpppkdtgiarv

  • Chain 'B':
    Sequence, based on SEQRES records:
    >2y9dB (B:)
mklvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsi
rgnniryfilpdslpldtllvdvepkvkskkreavagrgrgrgrgrgrgrgrgrggprr

    Sequence, based on observed residues (ATOM records):
    >2y9dB (B:)
mklvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsi
rgnniryfilpdslpldtllvdvepkvkskkreava

  • Chain 'C':
    Sequence, based on SEQRES records:
    >2y9dC (C:)
msllnkpksemtpeelqkreeeefntgplsvltqsvknntqvlincrnnkkllgrvkafd
rhcnmvlenvkemwtevpksgkgkkkskpvnkdryiskmflrgdsvivvlrnpliagk

    Sequence, based on observed residues (ATOM records):
    >2y9dC (C:)
eelqkreeeefntgplsvltqsvknntqvlincrnnkkllgrvkafdrhcnmvlenvkem
wtevpksgkgkkkskpvnkdryiskmflrgdsvivvlrnpliagk

  • Chain 'D':
    Sequence, based on SEQRES records:
    >2y9dD (D:)
msigvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleq
vyirgskirflilpdmlknapmlksmknknqgsgagrgkaailkaqvaargrgrgmgrgn
ifqkrr

    Sequence, based on observed residues (ATOM records):
    >2y9dD (D:)
gvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleqvyi
rgskirflilpdmlknapmlksmknknqg

  • Chain 'E':
    Sequence, based on SEQRES records:
    >2y9dE (E:)
mayrgqgqkvqkvmvqpinlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvldd
aeeihsktksrkqlgrimlkgdnitllqsvsn

    Sequence, based on observed residues (ATOM records):
    >2y9dE (E:)
pinlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvlddaeeihsktksrkqlgr
imlkgdnitllqsvsn

  • Chain 'F':
    Sequence, based on SEQRES records:
    >2y9dF (F:)
mslplnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlg
evlircnnvlyirgveeeeedgemre

    Sequence, based on observed residues (ATOM records):
    >2y9dF (F:)
plnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlgevl
ircnnvlyirgveeeeedgemre

  • Chain 'G':
    Sequence, based on SEQRES records:
    >2y9dG (G:)
mskahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmv
virgnsiimlealerv

    Sequence, based on observed residues (ATOM records):
    >2y9dG (G:)
ahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmvvir
gnsiimlealerv

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records:
    >2y9dH (H:)
mtvgksskmlqhidyrmrcilqdgrifigtfkafdkhmnlilcdcdefrkikpknskqae
reekrvlglvllrgenlvsmtvegpppkdtgiarv

  • Chain 'I':
    Sequence, based on SEQRES records:
    >2y9dI (I:)
mklvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsi
rgnniryfilpdslpldtllvdvepkvkskkreavagrgrgrgrgrgrgrgrgrggprr

    Sequence, based on observed residues (ATOM records):
    >2y9dI (I:)
lvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsirg
nniryfilpdslpldtllvdvepkvkskkreava

  • Chain 'J':
    Sequence, based on SEQRES records:
    >2y9dJ (J:)
msllnkpksemtpeelqkreeeefntgplsvltqsvknntqvlincrnnkkllgrvkafd
rhcnmvlenvkemwtevpksgkgkkkskpvnkdryiskmflrgdsvivvlrnpliagk

    Sequence, based on observed residues (ATOM records):
    >2y9dJ (J:)
peelqkreeeefntgplsvltqsvknntqvlincrnnkkllgrvkafdrhcnmvlenvke
mwtevpksgkgkkkskpvnkdryiskmflrgdsvivvlrnpliagk

  • Chain 'K':
    Sequence, based on SEQRES records:
    >2y9dK (K:)
msigvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleq
vyirgskirflilpdmlknapmlksmknknqgsgagrgkaailkaqvaargrgrgmgrgn
ifqkrr

    Sequence, based on observed residues (ATOM records):
    >2y9dK (K:)
gvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleqvyi
rgskirflilpdmlknapmlksmknknqg

  • Chain 'L':
    Sequence, based on SEQRES records:
    >2y9dL (L:)
mayrgqgqkvqkvmvqpinlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvldd
aeeihsktksrkqlgrimlkgdnitllqsvsn

    Sequence, based on observed residues (ATOM records):
    >2y9dL (L:)
inlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvlddaeeihsktksrkqlgri
mlkgdnitllqsvsn

  • Chain 'M':
    Sequence, based on SEQRES records:
    >2y9dM (M:)
mslplnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlg
evlircnnvlyirgveeeeedgemre

    Sequence, based on observed residues (ATOM records):
    >2y9dM (M:)
plnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlgevl
ircnnvlyirgveeeeedgemre

  • Chain 'N':
    Sequence, based on SEQRES records:
    >2y9dN (N:)
mskahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmv
virgnsiimlealerv

    Sequence, based on observed residues (ATOM records):
    >2y9dN (N:)
ahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmvvir
gnsiimlealerv

  • Chain 'O':
    Sequence, based on SEQRES records:
    >2y9dO (O:)
mtvgksskmlqhidyrmrcilqdgrifigtfkafdkhmnlilcdcdefrkikpknskqae
reekrvlglvllrgenlvsmtvegpppkdtgiarv

    Sequence, based on observed residues (ATOM records):
    >2y9dO (O:)
ksskmlqhidyrmrcilqdgrifigtfkafdkhmnlilcdcdefrkikpknskqaereek
rvlglvllrgenlvsmtvegpppkdtgiarv

  • Chain 'P':
    Sequence, based on SEQRES records:
    >2y9dP (P:)
mklvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsi
rgnniryfilpdslpldtllvdvepkvkskkreavagrgrgrgrgrgrgrgrgrggprr

    Sequence, based on observed residues (ATOM records):
    >2y9dP (P:)
klvrflmklshetvtielkngtqvhgtitgvdvsmnthlkavkmtlknrepvqletlsir
gnniryfilpdslpldtllvdvepkvkskkreava

  • Chain 'Q':
    Sequence, based on SEQRES records:
    >2y9dQ (Q:)
msllnkpksemtpeelqkreeeefntgplsvltqsvknntqvlincrnnkkllgrvkafd
rhcnmvlenvkemwtevpksgkgkkkskpvnkdryiskmflrgdsvivvlrnpliagk

    Sequence, based on observed residues (ATOM records):
    >2y9dQ (Q:)
tgplsvltqsvknntqvlincrnnkkllgrvkafdrhcnmvlenvkemwtevpksgkgkk
kskpvnkdryiskmflrgdsvivvlrnpli

  • Chain 'R':
    Sequence, based on SEQRES records:
    >2y9dR (R:)
msigvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleq
vyirgskirflilpdmlknapmlksmknknqgsgagrgkaailkaqvaargrgrgmgrgn
ifqkrr

    Sequence, based on observed residues (ATOM records):
    >2y9dR (R:)
gvpikvlheaeghivtcetntgevyrgklieaednmncqmsnitvtyrdgrvaqleqvyi
rgskirflilpdmlknapmlksmknknqg

  • Chain 'S':
    Sequence, based on SEQRES records:
    >2y9dS (S:)
mayrgqgqkvqkvmvqpinlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvldd
aeeihsktksrkqlgrimlkgdnitllqsvsn

    Sequence, based on observed residues (ATOM records):
    >2y9dS (S:)
vqpinlifrylqnrsriqvwlyeqvnmriegciigfdeymnlvlddaeeihsktksrkql
grimlkgdnitllqsvsn

  • Chain 'T':
    Sequence, based on SEQRES records:
    >2y9dT (T:)
mslplnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlg
evlircnnvlyirgveeeeedgemre

    Sequence, based on observed residues (ATOM records):
    >2y9dT (T:)
plnpkpflngltgkpvmvklkwgmeykgylvsvdgymnmqlanteeyidgalsghlgevl
ircnnvlyirgveeeeedgemre

  • Chain 'U':
    Sequence, based on SEQRES records:
    >2y9dU (U:)
mskahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmv
virgnsiimlealerv

    Sequence, based on observed residues (ATOM records):
    >2y9dU (U:)
ahppelkkfmdkklslklnggrhvqgilrgfdpfmnlvidecvematsgqqnnigmvvir
gnsiimleal

  • Chain 'V':
    No sequence available.

  • Chain 'X':
    No sequence available.

  • Chain 'Y':
    No sequence available.