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= psy18100
(76 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PE8|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 (free
Form)
pdb|2PEH|A Chain A, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
pdb|2PEH|B Chain B, Crystal Structure Of The Uhm Domain Of Human Spf45 In
Complex With Sf3b155-Ulm5
Length = 105
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 27/37 (72%), Gaps = 1/37 (2%)
Query: 34 ENMVGPGEVDSDLEPEVKDECNTKYGEVVRVIIHELP 70
NMVG GEVD DLE E K+EC KYG+V + +I E+P
Sbjct: 14 RNMVGAGEVDEDLEVETKEECE-KYGKVGKCVIFEIP 49
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/31 (64%), Positives = 22/31 (70%), Gaps = 1/31 (3%)
Query: 4 TILDLNMVGPGEVDSDLEPEVKEECNTKYGE 34
+L NMVG GEVD DLE E KEEC KYG+
Sbjct: 10 VVLLRNMVGAGEVDEDLEVETKEECE-KYGK 39
>pdb|2DNY|A Chain A, Solution Structure Of The Third Rna Binding Domain Of
Fbp- Interacting Repressor, Siahbp1
Length = 119
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 25 KEECNTKYGENMVGPGEVDSDLEPEVKDECNTKYGEVVRVIIHE 68
K+E NMV P ++D DLE EV +EC K+G V RVII++
Sbjct: 12 KQESTVMVLRNMVDPKDIDDDLEGEVTEECG-KFGAVNRVIIYQ 54
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/25 (60%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 9 NMVGPGEVDSDLEPEVKEECNTKYG 33
NMV P ++D DLE EV EEC K+G
Sbjct: 22 NMVDPKDIDDDLEGEVTEECG-KFG 45
>pdb|3DXB|A Chain A, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|B Chain B, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|C Chain C, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|D Chain D, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|E Chain E, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|F Chain F, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|G Chain G, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
pdb|3DXB|H Chain H, Structure Of The Uhm Domain Of Puf60 Fused To Thioredoxin
Length = 222
Score = 38.9 bits (89), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/35 (54%), Positives = 25/35 (71%), Gaps = 1/35 (2%)
Query: 34 ENMVGPGEVDSDLEPEVKDECNTKYGEVVRVIIHE 68
NMV P ++D DLE EV +EC K+G V RVII++
Sbjct: 130 RNMVDPKDIDDDLEGEVTEECG-KFGAVNRVIIYQ 163
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 24/34 (70%), Gaps = 2/34 (5%)
Query: 1 MLATILDL-NMVGPGEVDSDLEPEVKEECNTKYG 33
M +T++ L NMV P ++D DLE EV EEC K+G
Sbjct: 122 MESTVMVLRNMVDPKDIDDDLEGEVTEECG-KFG 154
>pdb|3UE2|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.23 A Resolution
pdb|3US5|A Chain A, Crystal Structure Of A Rna-Binding Domain Of A Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 1.38 A Resolution
Length = 118
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 25 KEECNTKYGENMVGPGEVDSDLEPEVKDECNTKYGEVVRVIIHE 68
K+E N V P ++D DLE EV +EC K+G V RVII++
Sbjct: 17 KQESTVXVLRNXVDPKDIDDDLEGEVTEECG-KFGAVNRVIIYQ 59
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 9 NMVGPGEVDSDLEPEVKEECNTKYG 33
N V P ++D DLE EV EEC K+G
Sbjct: 27 NXVDPKDIDDDLEGEVTEECG-KFG 50
>pdb|3FRK|A Chain A, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
pdb|3FRK|B Chain B, X-Ray Structure Of Qdtb From T. Thermosaccharolyticum In
Complex With A Plp:tdp-3-Aminoquinovose Aldimine
Length = 373
Score = 25.8 bits (55), Expect = 6.5, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 18/40 (45%)
Query: 19 DLEPEVKEECNTKYGENMVGPGEVDSDLEPEVKDECNTKY 58
++E E+K + Y N G+ D E E D CN Y
Sbjct: 14 EIEYEIKFKFEEIYKRNWFILGDEDKKFEQEFADYCNVNY 53
>pdb|2PNF|A Chain A, Structure Of Aquifex Aeolicus Fabg 3-oxoacyl-(acyl-carrier
Protein) Reductase
pdb|2PNF|B Chain B, Structure Of Aquifex Aeolicus Fabg 3-oxoacyl-(acyl-carrier
Protein) Reductase
pdb|2P68|A Chain A, Crystal Structure Of Aq_1716 From Aquifex Aeolicus Vf5
pdb|2P68|B Chain B, Crystal Structure Of Aq_1716 From Aquifex Aeolicus Vf5
Length = 248
Score = 25.8 bits (55), Expect = 7.3, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 8 LNMVGPGEVDSDLEPEVKEECNTKYGENM 36
+N V PG +++D+ + EE KY E +
Sbjct: 182 VNAVAPGFIETDMTAVLSEEIKQKYKEQI 210
>pdb|4DS1|A Chain A, The Structure Of A Yeast Dyn2-Nup159 Complex And The
Molecular Basis For The Dynein Light Chain - Nuclear
Pore Interaction
pdb|4DS1|C Chain C, The Structure Of A Yeast Dyn2-Nup159 Complex And The
Molecular Basis For The Dynein Light Chain - Nuclear
Pore Interaction
Length = 97
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 2 LATILDLNMVGPGEVDSDLEPEVKEECNTKYGENMVGPGEVDSDLEPEVKDECNTKYGEV 61
L ++ D N P SD+ ++KE+ T ++ + +++ D+ VK + + KYG
Sbjct: 3 LGSMSDENKSTPIVKASDITDKLKEDILT-ISKDALDKYQLERDIAGTVKKQLDVKYGNT 61
Query: 62 VRVII 66
VI+
Sbjct: 62 WHVIV 66
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
0.309 0.133 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,578,077
Number of Sequences: 62578
Number of extensions: 100870
Number of successful extensions: 141
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 122
Number of HSP's gapped (non-prelim): 22
length of query: 76
length of database: 14,973,337
effective HSP length: 45
effective length of query: 31
effective length of database: 12,157,327
effective search space: 376877137
effective search space used: 376877137
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)