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= psy9934
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CW1|F Chain F, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|Z Chain Z, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|1 Chain 1, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|2 Chain 2, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3PGW|F Chain F, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|I Chain I, Crystal Structure Of Human U1 Snrnp
pdb|2Y9A|F Chain F, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|M Chain M, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|T Chain T, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|F Chain F, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|M Chain M, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|T Chain T, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|F Chain F, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|M Chain M, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|T Chain T, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|F Chain F, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|M Chain M, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|T Chain T, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|3S6N|F Chain F, Crystal Structure Of The Gemin2-Binding Domain Of Smn,
Gemin2 In Complex With Smd1D2FEG FROM HUMAN
pdb|4F7U|F Chain F, Macromolecular Machine 6
pdb|4F7U|I Chain I, Macromolecular Machine 6
pdb|1VU2|D Chain D, The 8s Snrnp Assembly Intermediate
pdb|1VU2|L Chain L, The 8s Snrnp Assembly Intermediate
pdb|1VU2|T Chain T, The 8s Snrnp Assembly Intermediate
pdb|1VU2|BB Chain b, The 8s Snrnp Assembly Intermediate
pdb|1VU2|JJ Chain j, The 8s Snrnp Assembly Intermediate
pdb|1VU2|RR Chain r, The 8s Snrnp Assembly Intermediate
pdb|1VU2|ZZ Chain z, The 8s Snrnp Assembly Intermediate
pdb|1VU3|D Chain D, The 8s Snrnp Assembly Intermediate
pdb|1VU3|L Chain L, The 8s Snrnp Assembly Intermediate
pdb|1VU3|T Chain T, The 8s Snrnp Assembly Intermediate
pdb|1VU3|BB Chain b, The 8s Snrnp Assembly Intermediate
pdb|1VU3|JJ Chain j, The 8s Snrnp Assembly Intermediate
pdb|1VU3|RR Chain r, The 8s Snrnp Assembly Intermediate
pdb|4F77|L Chain L, The 8s Snrnp Assembly Intermediate
pdb|4F77|D Chain D, The 8s Snrnp Assembly Intermediate
pdb|4F77|T Chain T, The 8s Snrnp Assembly Intermediate
pdb|4F77|BB Chain b, The 8s Snrnp Assembly Intermediate
pdb|4F77|JJ Chain j, The 8s Snrnp Assembly Intermediate
pdb|4F77|RR Chain r, The 8s Snrnp Assembly Intermediate
pdb|4F77|ZZ Chain z, The 8s Snrnp Assembly Intermediate
Length = 86
Score = 115 bits (288), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 55/71 (77%), Positives = 59/71 (83%)
Query: 75 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 134
LP NPKPFLN LTGK V+ KLKWG EYKG LVS DGYMN QLA+TEE IDG +G LGEV
Sbjct: 3 LPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEV 62
Query: 135 LIRCNNILYIR 145
LIRCNN+LYIR
Sbjct: 63 LIRCNNVLYIR 73
Score = 99.4 bits (246), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 48/63 (76%), Positives = 51/63 (80%)
Query: 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 64
LP NPKPFLN LTGK V+ KLKWG EYKG LVS DGYMN QLA+TEE IDG +G LGEV
Sbjct: 3 LPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEV 62
Query: 65 LIR 67
LIR
Sbjct: 63 LIR 65
>pdb|1N9R|A Chain A, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|B Chain B, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|C Chain C, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|D Chain D, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|E Chain E, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|F Chain F, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
pdb|1N9R|G Chain G, Crystal Structure Of A Heptameric Ring Complex Of Yeast
Smf In Spacegroup P4122
Length = 93
Score = 83.2 bits (204), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 42/80 (52%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 67 RSLTMSTPLPCNPKPFLNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDG 125
S +S P NPKPFL L V KLK+ EY+G LVSTD Y N QL EE + G
Sbjct: 10 ESSDISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAG 69
Query: 126 HCTGKLGEVLIRCNNILYIR 145
G LGE+ IRCNN+LYIR
Sbjct: 70 VSHGTLGEIFIRCNNVLYIR 89
Score = 65.9 bits (159), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 34/68 (50%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDGHCTG 59
+S P NPKPFL L V KLK+ EY+G LVSTD Y N QL EE + G G
Sbjct: 14 ISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHG 73
Query: 60 KLGEVLIR 67
LGE+ IR
Sbjct: 74 TLGEIFIR 81
>pdb|1N9S|A Chain A, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|B Chain B, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|C Chain C, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|D Chain D, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|E Chain E, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|F Chain F, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|G Chain G, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|H Chain H, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|I Chain I, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|J Chain J, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|K Chain K, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|L Chain L, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|M Chain M, Crystal Structure Of Yeast Smf In Spacegroup P43212
pdb|1N9S|N Chain N, Crystal Structure Of Yeast Smf In Spacegroup P43212
Length = 93
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 41/79 (51%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 68 SLTMSTPLPCNPKPFLNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDGH 126
S +S P NPKPFL L V KLK+ EY+G LVSTD Y N QL EE + G
Sbjct: 11 SSDISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGV 70
Query: 127 CTGKLGEVLIRCNNILYIR 145
G LGE+ IR NN+LYIR
Sbjct: 71 SHGTLGEIFIRSNNVLYIR 89
Score = 68.2 bits (165), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 35/69 (50%), Positives = 40/69 (57%), Gaps = 1/69 (1%)
Query: 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDGHCTG 59
+S P NPKPFL L V KLK+ EY+G LVSTD Y N QL EE + G G
Sbjct: 14 ISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHG 73
Query: 60 KLGEVLIRS 68
LGE+ IRS
Sbjct: 74 TLGEIFIRS 82
>pdb|3SWN|B Chain B, Structure Of The Lsm657 Complex: An Assembly Intermediate
Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|E Chain E, Structure Of The Lsm657 Complex: An Assembly Intermediate
Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|Q Chain Q, Structure Of The Lsm657 Complex: An Assembly Intermediate
Of The Lsm1 7 And Lsm2 8 Rings
pdb|3SWN|T Chain T, Structure Of The Lsm657 Complex: An Assembly Intermediate
Of The Lsm1 7 And Lsm2 8 Rings
Length = 77
Score = 69.3 bits (168), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 43/70 (61%)
Query: 75 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 134
+ +P FLN + GK V+ +L G +YKGIL DGYMN L TEE ++G T G+
Sbjct: 3 MDSSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGKKTNVYGDA 62
Query: 135 LIRCNNILYI 144
IR NN+LY+
Sbjct: 63 FIRGNNVLYV 72
Score = 59.3 bits (142), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 37/63 (58%)
Query: 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 64
+ +P FLN + GK V+ +L G +YKGIL DGYMN L TEE ++G T G+
Sbjct: 3 MDSSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGKKTNVYGDA 62
Query: 65 LIR 67
IR
Sbjct: 63 FIR 65
>pdb|4EMK|B Chain B, Crystal Structure Of Splsm567
Length = 75
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 41/69 (59%)
Query: 76 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVL 135
+P FLN + GK V+ +L G +YKGIL DGY N L TEE ++G T G+
Sbjct: 2 DSSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYXNLALERTEEYVNGKKTNVYGDAF 61
Query: 136 IRCNNILYI 144
IR NN+LY+
Sbjct: 62 IRGNNVLYV 70
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 35/62 (56%)
Query: 6 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVL 65
+P FLN + GK V+ +L G +YKGIL DGY N L TEE ++G T G+
Sbjct: 2 DSSPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYXNLALERTEEYVNGKKTNVYGDAF 61
Query: 66 IR 67
IR
Sbjct: 62 IR 63
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%)
Query: 91 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR +NI+YI
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGDNIVYI 79
Score = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 30/47 (63%)
Query: 21 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 72
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%)
Query: 91 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR +NI+YI
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGDNIVYI 79
Score = 49.3 bits (116), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 30/47 (63%)
Query: 21 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 72
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%)
Query: 91 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR +NI+YI
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGDNIVYI 79
Score = 49.3 bits (116), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 30/47 (63%)
Query: 21 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 26 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 72
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%)
Query: 91 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR +NI+YI
Sbjct: 28 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGDNIVYI 81
Score = 49.3 bits (116), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 30/47 (63%)
Query: 21 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 28 VIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 74
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 37/57 (64%), Gaps = 1/57 (1%)
Query: 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
GK V+ KL+ HE +GIL S D ++N L EEIIDG+ K G +++R N+L+I
Sbjct: 21 GKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVY-KRGTMVVRGENVLFI 76
Score = 45.8 bits (107), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 38/61 (62%), Gaps = 3/61 (4%)
Query: 18 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR--SLTMSTPL 75
GK V+ KL+ HE +GIL S D ++N L EEIIDG+ K G +++R ++ +P+
Sbjct: 21 GKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVY-KRGTMVVRGENVLFISPV 79
Query: 76 P 76
P
Sbjct: 80 P 80
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%)
Query: 75 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 134
+P P LN VI +LK G E++G L D +MN L EEI +G K+G V
Sbjct: 1 MPPRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSV 60
Query: 135 LIRCNNILYI 144
+IR + ++++
Sbjct: 61 VIRGDTVVFV 70
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 38/74 (51%), Gaps = 2/74 (2%)
Query: 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEV 64
+P P LN VI +LK G E++G L D +MN L EEI +G K+G V
Sbjct: 1 MPPRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSV 60
Query: 65 LIR--SLTMSTPLP 76
+IR ++ +P P
Sbjct: 61 VIRGDTVVFVSPAP 74
>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 = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
K V+ LK G E++G L+ D ++N LA E I DG + G+++IR +N+L I
Sbjct: 15 KDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIRGDNVLAI 70
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 19 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
K V+ LK G E++G L+ D ++N LA E I DG + G+++IR
Sbjct: 15 KDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIR 63
>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 = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
K V+ LK G E++G L+ D ++N LA E I DG + G+++IR +N+L I
Sbjct: 17 KDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIRGDNVLAI 72
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%)
Query: 19 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
K V+ LK G E++G L+ D ++N LA E I DG + G+++IR
Sbjct: 17 KDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIR 65
>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 = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 33/54 (61%)
Query: 91 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYI 144
V+ KLK E +G+L S D +MN L+ +EEI KLG ++IR +N++ I
Sbjct: 22 VLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIRGDNVILI 75
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 28/47 (59%)
Query: 21 VICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
V+ KLK E +G+L S D +MN L+ +EEI KLG ++IR
Sbjct: 22 VLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIR 68
>pdb|4EMH|A Chain A, Crystal Structure Of Splsm4
pdb|4EMH|B Chain B, Crystal Structure Of Splsm4
pdb|4EMH|C Chain C, Crystal Structure Of Splsm4
pdb|4EMH|D Chain D, Crystal Structure Of Splsm4
pdb|4EMH|E Chain E, Crystal Structure Of Splsm4
pdb|4EMH|F Chain F, Crystal Structure Of Splsm4
pdb|4EMH|G Chain G, Crystal Structure Of Splsm4
pdb|4EMH|H Chain H, Crystal Structure Of Splsm4
pdb|4EMH|I Chain I, Crystal Structure Of Splsm4
pdb|4EMH|J Chain J, Crystal Structure Of Splsm4
pdb|4EMH|K Chain K, Crystal Structure Of Splsm4
pdb|4EMH|L Chain L, Crystal Structure Of Splsm4
pdb|4EMH|M Chain M, Crystal Structure Of Splsm4
pdb|4EMH|N Chain N, Crystal Structure Of Splsm4
pdb|4EMH|O Chain O, Crystal Structure Of Splsm4
pdb|4EMH|P Chain P, Crystal Structure Of Splsm4
pdb|4EMH|Q Chain Q, Crystal Structure Of Splsm4
pdb|4EMH|R Chain R, Crystal Structure Of Splsm4
pdb|4EMH|T Chain T, Crystal Structure Of Splsm4
pdb|4EMH|U Chain U, Crystal Structure Of Splsm4
pdb|4EMH|V Chain V, Crystal Structure Of Splsm4
pdb|4EMH|W Chain W, Crystal Structure Of Splsm4
pdb|4EMH|X Chain X, Crystal Structure Of Splsm4
pdb|4EMH|Y Chain Y, Crystal Structure Of Splsm4
Length = 105
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 36/74 (48%), Gaps = 7/74 (9%)
Query: 76 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----DGHCTGKL 131
P P LN G+ ++ +LK G + G L + D Y N L E+I DG +L
Sbjct: 14 PXLPLTLLNATQGRPILVELKNGETFNGHLENCDNYXNLTL---REVIRTXPDGDKFFRL 70
Query: 132 GEVLIRCNNILYIR 145
E IR NNI Y+R
Sbjct: 71 PECYIRGNNIKYLR 84
>pdb|3PGW|Z Chain Z, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|W Chain W, Crystal Structure Of Human U1 Snrnp
pdb|2Y9A|D Chain D, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|K Chain K, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|R Chain R, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|D Chain D, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|K Chain K, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|R Chain R, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|D Chain D, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|K Chain K, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|R Chain R, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|D Chain D, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|K Chain K, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|R Chain R, Structure Of The Spliceosomal U4 Snrnp Core Domain
Length = 126
Score = 33.9 bits (76), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%), Gaps = 2/67 (2%)
Query: 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLAS-TEEIIDGHCTGKLGEVLIR 137
P L+ G V C+ G Y+G L+ + MNCQ+++ T DG +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVA-QLEQVYIR 64
Query: 138 CNNILYI 144
+ I ++
Sbjct: 65 GSKIRFL 71
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 2/60 (3%)
Query: 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLAS-TEEIIDGHCTGKLGEVLIR 67
P L+ G V C+ G Y+G L+ + MNCQ+++ T DG +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVA-QLEQVYIR 64
>pdb|3CW1|G Chain G, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|3 Chain 3, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|4 Chain 4, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|5 Chain 5, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3PGW|G Chain G, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|J Chain J, Crystal Structure Of Human U1 Snrnp
pdb|2Y9A|G Chain G, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|N Chain N, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9A|U Chain U, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|G Chain G, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|N Chain N, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9B|U Chain U, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|G Chain G, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|N Chain N, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9C|U Chain U, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|G Chain G, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|N Chain N, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|2Y9D|U Chain U, Structure Of The Spliceosomal U4 Snrnp Core Domain
pdb|3S6N|G Chain G, Crystal Structure Of The Gemin2-Binding Domain Of Smn,
Gemin2 In Complex With Smd1D2FEG FROM HUMAN
pdb|4F7U|G Chain G, Macromolecular Machine 6
pdb|4F7U|J Chain J, Macromolecular Machine 6
pdb|1VU2|H Chain H, The 8s Snrnp Assembly Intermediate
pdb|1VU2|P Chain P, The 8s Snrnp Assembly Intermediate
pdb|1VU2|X Chain X, The 8s Snrnp Assembly Intermediate
pdb|1VU2|FF Chain f, The 8s Snrnp Assembly Intermediate
pdb|1VU2|NN Chain n, The 8s Snrnp Assembly Intermediate
pdb|1VU2|VV Chain v, The 8s Snrnp Assembly Intermediate
pdb|1VU2|4 Chain 4, The 8s Snrnp Assembly Intermediate
pdb|1VU3|H Chain H, The 8s Snrnp Assembly Intermediate
pdb|1VU3|P Chain P, The 8s Snrnp Assembly Intermediate
pdb|1VU3|X Chain X, The 8s Snrnp Assembly Intermediate
pdb|1VU3|FF Chain f, The 8s Snrnp Assembly Intermediate
pdb|1VU3|NN Chain n, The 8s Snrnp Assembly Intermediate
pdb|1VU3|VV Chain v, The 8s Snrnp Assembly Intermediate
pdb|4F77|P Chain P, The 8s Snrnp Assembly Intermediate
pdb|4F77|H Chain H, The 8s Snrnp Assembly Intermediate
pdb|4F77|X Chain X, The 8s Snrnp Assembly Intermediate
pdb|4F77|FF Chain f, The 8s Snrnp Assembly Intermediate
pdb|4F77|NN Chain n, The 8s Snrnp Assembly Intermediate
pdb|4F77|VV Chain v, The 8s Snrnp Assembly Intermediate
pdb|4F77|4 Chain 4, The 8s Snrnp Assembly Intermediate
Length = 76
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 71 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGK 130
MS P K F++ K + KL G +GIL D +MN + E+
Sbjct: 1 MSKAHPPELKKFMD----KKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQQNN 56
Query: 131 LGEVLIRCNNILYI 144
+G V+IR N+I+ +
Sbjct: 57 IGMVVIRGNSIIML 70
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGK 60
MS P K F++ K + KL G +GIL D +MN + E+
Sbjct: 1 MSKAHPPELKKFMD----KKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSGQQNN 56
Query: 61 LGEVLIR 67
+G V+IR
Sbjct: 57 IGMVVIR 63
>pdb|1D3B|A Chain A, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
pdb|1D3B|C Chain C, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
pdb|1D3B|E Chain E, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
pdb|1D3B|G Chain G, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
pdb|1D3B|I Chain I, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
pdb|1D3B|K Chain K, Crystal Structure Of The D3b Subcomplex Of The Human
Core Snrnp Domain At 2.0a Resolution
Length = 75
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%)
Query: 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIR 64
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%)
Query: 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 137
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIR 64
>pdb|1LJO|A Chain A, Crystal Structure Of An Sm-Like Protein (Af-Sm2) From
Archaeoglobus Fulgidus At 1.95a Resolution
Length = 77
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 79 PKPFLNLLTGKSVICKLKWGHEYK--GILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLI 136
P + + GK + ++K G E + G L D YMN L + E LGE+++
Sbjct: 6 PNQMVKSMVGKIIRVEMK-GEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVL 64
Query: 137 RCNNILYIR 145
R NN++ I+
Sbjct: 65 RGNNVVLIQ 73
>pdb|3CW1|D Chain D, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|S Chain S, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|T Chain T, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|U Chain U, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 126
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 30/66 (45%)
Query: 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRC 138
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRG 65
Query: 139 NNILYI 144
I ++
Sbjct: 66 CKIRFL 71
Score = 31.6 bits (70), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%)
Query: 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIR 64
>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 = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 33/78 (42%), Gaps = 12/78 (15%)
Query: 19 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----DGHCTG---KLGEVLIRSLTM 71
+ + G + GIL D MN L EE + DG TG KLG V++R T+
Sbjct: 38 QRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTL 97
Query: 72 STPLPCN-----PKPFLN 84
P + P PF+
Sbjct: 98 VLIAPMDGSEEIPNPFVQ 115
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 7/63 (11%)
Query: 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----DGHCTG---KLGEVLIRCNNI 141
+ + G + GIL D MN L EE + DG TG KLG V++R +
Sbjct: 38 QRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTL 97
Query: 142 LYI 144
+ I
Sbjct: 98 VLI 100
>pdb|2ZNL|A Chain A, Crystal Structure Of Pa-Pb1 Complex Form Influenza Virus
Rna Polymerase
Length = 478
Score = 29.6 bits (65), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 4/80 (5%)
Query: 54 DGHCTGKLGEVLIRSLTMSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMN 113
+ +C ++G++LIRS P FL + T + K+KWG E + L+ + +
Sbjct: 300 EKYCVLEIGDMLIRSAIGQVSRPM----FLYVRTNGTSKIKMKWGMEMRRCLLQSLQQIE 355
Query: 114 CQLASTEEIIDGHCTGKLGE 133
+ + + + T + E
Sbjct: 356 SMIEAESSVKEKDMTKEFFE 375
>pdb|1L0Q|A Chain A, Tandem Yvtn Beta-Propeller And Pkd Domains From An
Archaeal Surface Layer Protein
pdb|1L0Q|B Chain B, Tandem Yvtn Beta-Propeller And Pkd Domains From An
Archaeal Surface Layer Protein
pdb|1L0Q|C Chain C, Tandem Yvtn Beta-Propeller And Pkd Domains From An
Archaeal Surface Layer Protein
pdb|1L0Q|D Chain D, Tandem Yvtn Beta-Propeller And Pkd Domains From An
Archaeal Surface Layer Protein
Length = 391
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 42/105 (40%), Gaps = 16/105 (15%)
Query: 21 VICKLKWGHEYKGILVSTDG---YMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPC 77
VI + G +G+ VS DG Y+ +ST +ID G V + L
Sbjct: 66 VIATVPAGSSPQGVAVSPDGKQVYVTNXASSTLSVIDTTSNTVAGTVKTGKSPLGLALSP 125
Query: 78 NPKPF------------LNLLTGKSVICKLKWGHEYKGILVSTDG 110
+ K +N +T K+VI + G KGI V+ DG
Sbjct: 126 DGKKLYVTNNGDKTVSVINTVT-KAVINTVSVGRSPKGIAVTPDG 169
>pdb|4IUJ|A Chain A, Structure Of Polymerase Acid Protein (pa) From
Influenzavirus A Influenza A Virus A, Wilson-smith/1933
(h1n1)
Length = 464
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 36/80 (45%), Gaps = 4/80 (5%)
Query: 54 DGHCTGKLGEVLIRSLTMSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMN 113
+ +C ++G++L+RS P FL + T + K+KWG E + L+ + +
Sbjct: 286 EKYCVLEVGDMLLRSAIGHVSRPM----FLYVRTNGTSKIKMKWGMEMRRCLLQSLQQIE 341
Query: 114 CQLASTEEIIDGHCTGKLGE 133
+ + + + T + E
Sbjct: 342 SMIEAESSVKEKDMTKEFFE 361
>pdb|2BB5|A Chain A, Structure Of Human Transcobalamin In Complex With
Cobalamin
pdb|2BB5|B Chain B, Structure Of Human Transcobalamin In Complex With
Cobalamin
Length = 409
Score = 26.6 bits (57), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 12/73 (16%)
Query: 40 GYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCNPKPFLNLLTGKSVICKLKW-- 97
GY C L S DG C GK + ++ C F+ G ++ +LKW
Sbjct: 61 GYQQCLLGSAFSEDDGDCQGKPSMGQLALYLLALRANCE---FVRGHKGDRLVSQLKWFL 117
Query: 98 -------GHEYKG 103
GH++KG
Sbjct: 118 EDEKRAIGHDHKG 130
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
0.321 0.140 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,578,171
Number of Sequences: 62578
Number of extensions: 172095
Number of successful extensions: 457
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 413
Number of HSP's gapped (non-prelim): 49
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)