BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 033904
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B34|B Chain B, Crystal Structure Of The D1d2 Sub-Complex From The Human
Snrnp Core Domain
pdb|3CW1|C Chain C, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|P Chain P, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|Q Chain Q, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|R Chain R, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3PGW|Y Chain Y, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|V Chain V, Crystal Structure Of Human U1 Snrnp
pdb|2Y9A|C Chain C, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|J Chain J, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|Q Chain Q, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|C Chain C, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|J Chain J, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|Q Chain Q, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|C Chain C, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|J Chain J, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|Q Chain Q, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|C Chain C, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|J Chain J, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|Q Chain Q, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|3S6N|B Chain B, Crystal Structure Of The Gemin2-Binding Domain Of Smn,
Gemin2 In Complex With Smd1D2FEG FROM HUMAN
pdb|4F7U|B Chain B, Macromolecular Machine 6
pdb|4F7U|D Chain D, Macromolecular Machine 6
pdb|1VU2|B Chain B, The 8s Snrnp Assembly Intermediate
pdb|1VU2|J Chain J, The 8s Snrnp Assembly Intermediate
pdb|1VU2|R Chain R, The 8s Snrnp Assembly Intermediate
pdb|1VU2|Z Chain Z, The 8s Snrnp Assembly Intermediate
pdb|1VU2|HH Chain h, The 8s Snrnp Assembly Intermediate
pdb|1VU2|PP Chain p, The 8s Snrnp Assembly Intermediate
pdb|1VU2|XX Chain x, The 8s Snrnp Assembly Intermediate
pdb|1VU3|B Chain B, The 8s Snrnp Assembly Intermediate
pdb|1VU3|J Chain J, The 8s Snrnp Assembly Intermediate
pdb|1VU3|R Chain R, The 8s Snrnp Assembly Intermediate
pdb|1VU3|Z Chain Z, The 8s Snrnp Assembly Intermediate
pdb|1VU3|HH Chain h, The 8s Snrnp Assembly Intermediate
pdb|1VU3|PP Chain p, The 8s Snrnp Assembly Intermediate
pdb|4F77|J Chain J, The 8s Snrnp Assembly Intermediate
pdb|4F77|B Chain B, The 8s Snrnp Assembly Intermediate
pdb|4F77|R Chain R, The 8s Snrnp Assembly Intermediate
pdb|4F77|Z Chain Z, The 8s Snrnp Assembly Intermediate
pdb|4F77|HH Chain h, The 8s Snrnp Assembly Intermediate
pdb|4F77|PP Chain p, The 8s Snrnp Assembly Intermediate
pdb|4F77|XX Chain x, The 8s Snrnp Assembly Intermediate
Length = 118
Score = 144 bits (362), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 80/90 (88%), Positives = 87/90 (96%)
Query: 19 FNTGPLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKG 78
FNTGPLSVL SVKNNTQVLINCRNNKKLLGRV+AFDRHCNMVLENV+EMWTE+PK+GKG
Sbjct: 24 FNTGPLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKG 83
Query: 79 KKKALPVNKDRFISKMFLRGDSVIIVLRNP 108
KKK+ PVNKDR+ISKMFLRGDSVI+VLRNP
Sbjct: 84 KKKSKPVNKDRYISKMFLRGDSVIVVLRNP 113
>pdb|4EMG|A Chain A, Crystal Structure Of Splsm3
pdb|4EMG|B Chain B, Crystal Structure Of Splsm3
pdb|4EMG|C Chain C, Crystal Structure Of Splsm3
pdb|4EMG|D Chain D, Crystal Structure Of Splsm3
pdb|4EMG|E Chain E, Crystal Structure Of Splsm3
pdb|4EMG|F Chain F, Crystal Structure Of Splsm3
pdb|4EMG|G Chain G, Crystal Structure Of Splsm3
pdb|4EMG|H Chain H, Crystal Structure Of Splsm3
pdb|4EMG|I Chain I, Crystal Structure Of Splsm3
pdb|4EMG|J Chain J, Crystal Structure Of Splsm3
pdb|4EMG|K Chain K, Crystal Structure Of Splsm3
pdb|4EMG|L Chain L, Crystal Structure Of Splsm3
pdb|4EMG|M Chain M, Crystal Structure Of Splsm3
pdb|4EMG|N Chain N, Crystal Structure Of Splsm3
Length = 93
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 46/82 (56%), Gaps = 3/82 (3%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL ++ +S+ + V + R +++L GR+ A+D H N VL + E+ T K KA
Sbjct: 10 PLDLVRLSL--DEIVYVKLRGDRELNGRLHAYDEHLNXVLGDAEEIVTIFDDEETDKDKA 67
Query: 83 LPVNKDRFISKMFLRGDSVIIV 104
L + + +F+RGDSVI++
Sbjct: 68 LKTIRKHY-EXLFVRGDSVILI 88
>pdb|1TH7|A Chain A, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|B Chain B, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|C Chain C, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|D Chain D, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|E Chain E, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|F Chain F, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|G Chain G, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|H Chain H, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|I Chain I, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|J Chain J, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|K Chain K, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|L Chain L, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|M Chain M, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
pdb|1TH7|N Chain N, Crystal Structure Of An Archaeal Sm Protein From
Sulfolobus Solfataricus
Length = 81
Score = 42.4 bits (98), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%), Gaps = 14/71 (19%)
Query: 34 NTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISK 93
N VL+ + NK++ G +R++D+H N+VL + E+ ++ G GKK +
Sbjct: 19 NNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSD----GSGKK----------LGT 64
Query: 94 MFLRGDSVIIV 104
+ +RGD+VI++
Sbjct: 65 IVIRGDNVILI 75
>pdb|3BW1|A Chain A, Crystal Structure Of Homomeric Yeast Lsm3 Exhibiting Novel
Octameric Ring Organisation
pdb|3BW1|B Chain B, Crystal Structure Of Homomeric Yeast Lsm3 Exhibiting Novel
Octameric Ring Organisation
Length = 96
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 44/82 (53%), Gaps = 9/82 (10%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL +L +++ + +V I R + L+G ++AFD HCN+VL + E +L + +
Sbjct: 11 PLDLLKLNL--DERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESE- 67
Query: 83 LPVNKDRFISKMFLRGDSVIIV 104
R +F+RGD+V ++
Sbjct: 68 ------RRCEMVFIRGDTVTLI 83
>pdb|1I8F|A Chain A, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|B Chain B, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|C Chain C, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|D Chain D, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|E Chain E, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|F Chain F, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1I8F|G Chain G, The Crystal Structure Of A Heptameric Archaeal Sm
Protein: Implications For The Eukaryotic Snrnp Core
pdb|1LNX|A Chain A, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|B Chain B, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|C Chain C, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|D Chain D, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|E Chain E, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|F Chain F, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
pdb|1LNX|G Chain G, Crystal Structure Of The P.Aerophilum Smap1 Heptamer In
A New Crystal Form (C2221)
Length = 81
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 25/33 (75%)
Query: 36 QVLINCRNNKKLLGRVRAFDRHCNMVLENVREM 68
QVL+ R++ ++ G +R+FD+H N++LE+ E+
Sbjct: 23 QVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI 55
>pdb|2FWK|A Chain A, Crystal Structure Of Cryptosporidium Parvum U6 Snrna-
Associated Sm-Like Protein Lsm5
pdb|2FWK|B Chain B, Crystal Structure Of Cryptosporidium Parvum U6 Snrna-
Associated Sm-Like Protein Lsm5
pdb|3PGG|A Chain A, Crystal Structure Of Cryptosporidium Parvum U6
Snrna-Associated Sm- Like Protein Lsm5
pdb|3PGG|B Chain B, Crystal Structure Of Cryptosporidium Parvum U6
Snrna-Associated Sm- Like Protein Lsm5
Length = 121
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 29/45 (64%), Gaps = 2/45 (4%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVRE 67
PL+++ + N V++ + +K+ G +R FD + NMVL++V+E
Sbjct: 29 PLALIDKCIGNRIYVVM--KGDKEFSGVLRGFDEYVNMVLDDVQE 71
>pdb|1LOJ|A Chain A, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|B Chain B, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|C Chain C, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|D Chain D, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|E Chain E, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|F Chain F, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|G Chain G, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|H Chain H, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|I Chain I, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|J Chain J, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|K Chain K, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|L Chain L, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|M Chain M, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
pdb|1LOJ|N Chain N, Crystal Structure Of A Methanobacterial Sm-Like Archaeal
Protein (Smap1) Bound To Uridine-5'-Monophosphate (Ump)
Length = 87
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 44/84 (52%), Gaps = 16/84 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL L S+ N+ V+I + +++ G +++FD H N+VL + E+ + G+ ++
Sbjct: 14 PLDALGNSL--NSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEEL-----EDGEVTRR- 65
Query: 83 LPVNKDRFISKMFLRGDSVIIVLR 106
+ + +RGD+++ + R
Sbjct: 66 --------LGTVLIRGDNIVYISR 81
>pdb|1JRI|A Chain A, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|B Chain B, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|C Chain C, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|D Chain D, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|E Chain E, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|F Chain F, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|G Chain G, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|H Chain H, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|I Chain I, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|J Chain J, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|K Chain K, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|L Chain L, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|M Chain M, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit.
pdb|1JRI|N Chain N, The Crystal Structure Of An Sm-Like Archaeal Protein With
Two Heptamers In The Asymmetric Unit
Length = 85
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 44/84 (52%), Gaps = 16/84 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL L S+ N+ V+I + +++ G +++FD H N+VL + E+ + G+ ++
Sbjct: 14 PLDALGNSL--NSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEEL-----EDGEVTRR- 65
Query: 83 LPVNKDRFISKMFLRGDSVIIVLR 106
+ + +RGD+++ + R
Sbjct: 66 --------LGTVLIRGDNIVYISR 81
>pdb|1JBM|A Chain A, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|B Chain B, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|C Chain C, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|D Chain D, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|E Chain E, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|F Chain F, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
pdb|1JBM|G Chain G, Heptameric Crystal Structure Of Mth649, An Sm-Like
Archaeal Protein From Methanobacterium
Thermautotrophicum
Length = 86
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 44/84 (52%), Gaps = 16/84 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL L S+ N+ V+I + +++ G +++FD H N+VL + E+ + G+ ++
Sbjct: 14 PLDALGNSL--NSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEEL-----EDGEVTRR- 65
Query: 83 LPVNKDRFISKMFLRGDSVIIVLR 106
+ + +RGD+++ + R
Sbjct: 66 --------LGTVLIRGDNIVYISR 81
>pdb|1I81|A Chain A, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|B Chain B, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|C Chain C, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|D Chain D, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|E Chain E, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|F Chain F, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1I81|G Chain G, Crystal Structure Of A Heptameric Lsm Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|A Chain A, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|B Chain B, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|C Chain C, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|D Chain D, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|E Chain E, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|F Chain F, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
pdb|1MGQ|G Chain G, Crystal Structure Of A Heptameric Sm-Like Protein From
Methanobacterium Thermoautotrophicum
Length = 83
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 43/82 (52%), Gaps = 16/82 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL L S+ N+ V+I + +++ G +++FD H N+VL + E+ + G+ ++
Sbjct: 16 PLDALGNSL--NSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEEL-----EDGEVTRR- 67
Query: 83 LPVNKDRFISKMFLRGDSVIIV 104
+ + +RGD+++ +
Sbjct: 68 --------LGTVLIRGDNIVYI 81
>pdb|1I5L|A Chain A, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|B Chain B, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|C Chain C, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|D Chain D, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|E Chain E, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|F Chain F, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|G Chain G, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|H Chain H, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|I Chain I, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|J Chain J, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|K Chain K, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|L Chain L, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|M Chain M, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I5L|N Chain N, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus Complexed With Short Poly-U Rna
pdb|1I4K|A Chain A, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|B Chain B, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|C Chain C, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|D Chain D, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|E Chain E, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|F Chain F, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|G Chain G, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|H Chain H, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|I Chain I, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|J Chain J, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|K Chain K, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|L Chain L, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|M Chain M, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|N Chain N, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|O Chain O, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|P Chain P, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|Q Chain Q, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|R Chain R, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|S Chain S, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|T Chain T, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|U Chain U, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|V Chain V, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|W Chain W, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|X Chain X, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|Y Chain Y, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|Z Chain Z, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|1 Chain 1, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
pdb|1I4K|2 Chain 2, Crystal Structure Of An Sm-Like Protein (Af-Sm1) From
Archaeoglobus Fulgidus At 2.5a Resolution
Length = 77
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 16/86 (18%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL VL S+K + V++ + ++ G + +D H N+VL + E+ + G+ +K
Sbjct: 5 PLDVLNRSLK--SPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEI-----QNGEVVRK- 56
Query: 83 LPVNKDRFISKMFLRGDSVIIVLRNP 108
+ + +RGD+V+ V P
Sbjct: 57 --------VGSVVIRGDTVVFVSPAP 74
>pdb|3PGW|B Chain B, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|Q Chain Q, Crystal Structure Of Human U1 Snrnp
Length = 231
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 42 RNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 101
++ + +G +AFD+H N++L + E PK K ++ + R + + LRG+++
Sbjct: 22 QDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAER----EEKRVLGLVLLRGENL 77
Query: 102 I 102
+
Sbjct: 78 V 78
>pdb|2Y9A|A Chain A, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|H Chain H, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|O Chain O, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|A Chain A, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|H Chain H, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|O Chain O, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|A Chain A, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|H Chain H, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|O Chain O, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|A Chain A, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|H Chain H, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|O Chain O, Structure Of The Spliceosomal U4 Snrnp Core Domain
Length = 95
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 42 RNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 101
++ + +G +AFD+H N++L + E PK K ++ + R + + LRG+++
Sbjct: 22 QDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAER----EEKRVLGLVLLRGENL 77
Query: 102 I 102
+
Sbjct: 78 V 78
>pdb|1D3B|B Chain B, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
pdb|1D3B|D Chain D, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
pdb|1D3B|F Chain F, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
pdb|1D3B|H Chain H, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
pdb|1D3B|J Chain J, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
pdb|1D3B|L Chain L, Crystal Structure Of The D3b Subcomplex Of The Human Core
Snrnp Domain At 2.0a Resolution
Length = 91
Score = 29.6 bits (65), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 42 RNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 101
++ + +G +AFD+H N++L + E PK K ++ + R + + LRG+++
Sbjct: 22 QDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAER----EEKRVLGLVLLRGENL 77
Query: 102 I 102
+
Sbjct: 78 V 78
>pdb|3CW1|A Chain A, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|H Chain H, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|I Chain I, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|J Chain J, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 174
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 42 RNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKALPVNKDRFISKMFLRGDSV 101
++ + +G +AFD+H N++L + E PK K ++ + R + + LRG+++
Sbjct: 22 QDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAER----EEKRVLGLVLLRGENL 77
Query: 102 I 102
+
Sbjct: 78 V 78
>pdb|4EMK|C Chain C, Crystal Structure Of Splsm567
Length = 113
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 25 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGK 77
S+L +S + ++ +++ G ++ FD+ N+VL++V E P+ GK
Sbjct: 24 SILDLSRYQDQRIQATFTGGRQITGILKGFDQLXNLVLDDVEEQLRN-PEDGK 75
>pdb|3SWN|C Chain C, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|F Chain F, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|O Chain O, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|R Chain R, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
Length = 117
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 25 SVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGK 77
S+L +S + ++ +++ G ++ FD+ N+VL++V E P+ GK
Sbjct: 28 SILDLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRN-PEDGK 79
>pdb|1H64|1 Chain 1, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|2 Chain 2, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|A Chain A, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|B Chain B, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|C Chain C, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|D Chain D, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|E Chain E, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|F Chain F, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|G Chain G, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|H Chain H, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|I Chain I, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|J Chain J, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|K Chain K, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|L Chain L, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|M Chain M, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|N Chain N, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|O Chain O, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|P Chain P, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|Q Chain Q, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|R Chain R, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|S Chain S, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|T Chain T, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|U Chain U, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|V Chain V, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|W Chain W, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|X Chain X, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|Y Chain Y, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
pdb|1H64|Z Chain Z, Crystal Structure Of The Sm-Related Protein Of P. Abyssi
The Biological Unit Is A Heptamer
Length = 75
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 16/82 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL V+ S+ + VL+ + + GR+ +D H N+VL + E+ + G+ K+
Sbjct: 5 PLDVIHRSL--DKDVLVILKKGFEFRGRLIGYDIHLNVVLAD-----AEMIQDGEVVKRY 57
Query: 83 LPVNKDRFISKMFLRGDSVIIV 104
K+ +RGD+V+ +
Sbjct: 58 ---------GKIVIRGDNVLAI 70
>pdb|1M8V|A Chain A, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|B Chain B, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|C Chain C, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|D Chain D, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|E Chain E, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|F Chain F, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|G Chain G, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|H Chain H, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|I Chain I, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|J Chain J, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|K Chain K, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|L Chain L, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|M Chain M, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
pdb|1M8V|N Chain N, Structure Of Pyrococcus Abyssii Sm Protein In Complex With
A Uridine Heptamer
Length = 77
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 40/82 (48%), Gaps = 16/82 (19%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKKKA 82
PL V+ S+ + VL+ + + GR+ +D H N+VL + E+ + G+ K+
Sbjct: 7 PLDVIHRSL--DKDVLVILKKGFEFRGRLIGYDIHLNVVLAD-----AEMIQDGEVVKRY 59
Query: 83 LPVNKDRFISKMFLRGDSVIIV 104
K+ +RGD+V+ +
Sbjct: 60 ---------GKIVIRGDNVLAI 72
>pdb|1UKM|B Chain B, Crystal Structure Of Ems16, An Antagonist Of Collagen
Receptor Integrin Alpha2beta1 (GpiaIIA)
pdb|1V7P|B Chain B, Structure Of Ems16-Alpha2-I Domain Complex
Length = 128
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 53 AFDRHCNMVLENVREMWTELP----KTGKGKKKA--LPVNKDRFISKM---FLRGDSVII 103
+FD+HC V E V+ WTE + KG + A ++ F+SK+ L+ S+ I
Sbjct: 7 SFDQHCYKVFEPVKN-WTEAEEICMQQHKGSRLASIHSSEEEAFVSKLASKALKFTSMWI 65
Query: 104 VLRNP 108
L NP
Sbjct: 66 GLNNP 70
>pdb|3SWN|A Chain A, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|D Chain D, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|P Chain P, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|S Chain S, Structure Of The Lsm657 Complex: An Assembly
Intermediate Of The Lsm1 7 And Lsm2 8 Rings
Length = 82
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 23 PLSVLMMSVKNNTQVLINCRNNKKLLGRVRAFDRHCNMVLENVRE 67
PL ++ + +N V++ ++ ++ G + FD + N+VL++V E
Sbjct: 9 PLELIDKCIGSNLWVIM--KSEREFAGTLVGFDDYVNIVLKDVTE 51
>pdb|4GFH|F Chain F, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1099
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 10/52 (19%)
Query: 31 VKNNTQVLINC---------RNNKKLLGRVRAFDRHCNMVLENVRE-MWTEL 72
+KNN + INC + ++L RV+ F C + LE + + M T+L
Sbjct: 322 IKNNMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKIMKTDL 373
>pdb|4GFH|A Chain A, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1103
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 10/52 (19%)
Query: 31 VKNNTQVLINC---------RNNKKLLGRVRAFDRHCNMVLENVRE-MWTEL 72
+KNN + INC + ++L RV+ F C + LE + + M T+L
Sbjct: 322 IKNNMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKIMKTDL 373
>pdb|1PVG|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii
pdb|1PVG|B Chain B, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii
Length = 418
Score = 25.8 bits (55), Expect = 5.9, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 9/47 (19%)
Query: 31 VKNNTQVLINC---------RNNKKLLGRVRAFDRHCNMVLENVREM 68
+KNN + INC + ++L RV+ F C + LE + ++
Sbjct: 350 IKNNXFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKI 396
>pdb|3CW1|E Chain E, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|W Chain W, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|X Chain X, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|Y Chain Y, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3PGW|E Chain E, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|H Chain H, Crystal Structure Of Human U1 Snrnp
pdb|2Y9A|E Chain E, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|L Chain L, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|S Chain S, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|E Chain E, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|L Chain L, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|S Chain S, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|E Chain E, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|L Chain L, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|S Chain S, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|E Chain E, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|L Chain L, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|S Chain S, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|3S6N|E Chain E, Crystal Structure Of The Gemin2-Binding Domain Of Smn,
Gemin2 In Complex With Smd1D2FEG FROM HUMAN
pdb|4F7U|E Chain E, Macromolecular Machine 6
pdb|4F7U|H Chain H, Macromolecular Machine 6
pdb|1VU2|C Chain C, The 8s Snrnp Assembly Intermediate
pdb|1VU2|K Chain K, The 8s Snrnp Assembly Intermediate
pdb|1VU2|S Chain S, The 8s Snrnp Assembly Intermediate
pdb|1VU2|AA Chain a, The 8s Snrnp Assembly Intermediate
pdb|1VU2|II Chain i, The 8s Snrnp Assembly Intermediate
pdb|1VU2|QQ Chain q, The 8s Snrnp Assembly Intermediate
pdb|1VU2|YY Chain y, The 8s Snrnp Assembly Intermediate
pdb|1VU3|C Chain C, The 8s Snrnp Assembly Intermediate
pdb|1VU3|K Chain K, The 8s Snrnp Assembly Intermediate
pdb|1VU3|S Chain S, The 8s Snrnp Assembly Intermediate
pdb|1VU3|AA Chain a, The 8s Snrnp Assembly Intermediate
pdb|1VU3|II Chain i, The 8s Snrnp Assembly Intermediate
pdb|1VU3|QQ Chain q, The 8s Snrnp Assembly Intermediate
pdb|4F77|K Chain K, The 8s Snrnp Assembly Intermediate
pdb|4F77|C Chain C, The 8s Snrnp Assembly Intermediate
pdb|4F77|S Chain S, The 8s Snrnp Assembly Intermediate
pdb|4F77|AA Chain a, The 8s Snrnp Assembly Intermediate
pdb|4F77|II Chain i, The 8s Snrnp Assembly Intermediate
pdb|4F77|QQ Chain q, The 8s Snrnp Assembly Intermediate
pdb|4F77|YY Chain y, The 8s Snrnp Assembly Intermediate
Length = 92
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 47/84 (55%), Gaps = 15/84 (17%)
Query: 23 PLSVLMMSVKNNT--QVLINCRNNKKLLGRVRAFDRHCNMVLENVREMWTELPKTGKGKK 80
P++++ ++N + QV + + N ++ G + FD + N+VL++ E+ + KT K +K
Sbjct: 17 PINLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHS---KT-KSRK 72
Query: 81 KALPVNKDRFISKMFLRGDSVIIV 104
+ + ++ L+GD++ ++
Sbjct: 73 Q---------LGRIMLKGDNITLL 87
>pdb|1QZR|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii Bound To Icrf-187
(Dexrazoxane)
pdb|1QZR|B Chain B, Crystal Structure Of The Atpase Region Of Saccharomyces
Cerevisiae Topoisomerase Ii Bound To Icrf-187
(Dexrazoxane)
Length = 418
Score = 25.4 bits (54), Expect = 8.5, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 9/47 (19%)
Query: 31 VKNNTQVLINC---------RNNKKLLGRVRAFDRHCNMVLENVREM 68
+KNN + INC + ++L RV+ F C + LE + ++
Sbjct: 350 IKNNMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKI 396
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,613,166
Number of Sequences: 62578
Number of extensions: 88075
Number of successful extensions: 215
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 198
Number of HSP's gapped (non-prelim): 26
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)