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= psy4296
(103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 118 bits (295), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 51/62 (82%), Positives = 58/62 (93%)
Query: 29 TGDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHIDPDSM 88
+G+++VVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYS+F C NKECPFLHIDP+S
Sbjct: 6 SGEKTVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSKFGECSNKECPFLHIDPESK 65
Query: 89 IE 90
I+
Sbjct: 66 IK 67
>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
pdb|2RHK|D Chain D, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
Length = 72
Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 49/59 (83%), Positives = 54/59 (91%)
Query: 31 DRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHIDPDSMI 89
+++VVCKHWLRGLCKKGDQCEFLHEYDMTKM ECYFYS+F C NKECPFLHIDP+S I
Sbjct: 14 EKTVVCKHWLRGLCKKGDQCEFLHEYDMTKMSECYFYSKFGECSNKECPFLHIDPESKI 72
>pdb|1XB2|A Chain A, Crystal Structure Of Bos Taurus Mitochondrial Elongation
Factor TuTS COMPLEX
Length = 409
Score = 30.4 bits (67), Expect = 0.23, Method: Composition-based stats.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 28 ITGDRSVVCKHWLRGLCKKGDQCEFL 53
I G +VV RG+ KKGD+CEFL
Sbjct: 225 IPGRGTVVTGTLERGILKKGDECEFL 250
>pdb|1D2E|A Chain A, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|B Chain B, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|C Chain C, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
pdb|1D2E|D Chain D, Crystal Structure Of Mitochondrial Ef-Tu In Complex With
Gdp
Length = 397
Score = 30.4 bits (67), Expect = 0.23, Method: Composition-based stats.
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 28 ITGDRSVVCKHWLRGLCKKGDQCEFL 53
I G +VV RG+ KKGD+CEFL
Sbjct: 214 IPGRGTVVTGTLERGILKKGDECEFL 239
>pdb|3D2Q|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2S|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
Length = 70
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 31 DRSVVCKHWLRGLCKKGDQ-CEFLHEYDMT 59
DR VC+ + RG C +G+ C F H D T
Sbjct: 4 DRLEVCREYQRGNCNRGENDCRFAHPADST 33
>pdb|2WMH|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
In Complex With The H-Disaccharide Blood Group Antigen
Length = 581
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 24 PLRHITGDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHI 83
P+R G S+V WL GLC + D K E ++ + F ++
Sbjct: 215 PIRDDAGTDSIVSGFWLSGLCDN-----WGSSTDTWKWWEKHYTNTFETGRARDMRSYAS 269
Query: 84 DPDSMI 89
+P+SMI
Sbjct: 270 EPESMI 275
>pdb|2WMG|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Complex With The Lewisy Pentasaccharide
Blood Group Antigen
Length = 581
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 24 PLRHITGDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHI 83
P+R G S+V WL GLC + D K E ++ + F ++
Sbjct: 215 PIRDDAGTDSIVSGFWLSGLCDN-----WGSSTDTWKWWEKHYTNTFETGRARDMRSYAS 269
Query: 84 DPDSMI 89
+P+SMI
Sbjct: 270 EPESMI 275
>pdb|2WMF|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Its Native Form
Length = 581
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 24 PLRHITGDRSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHI 83
P+R G S+V WL GLC + D K E ++ + F ++
Sbjct: 215 PIRDDAGTDSIVSGFWLSGLCDN-----WGSSTDTWKWWEKHYTNTFETGRARDMRSYAS 269
Query: 84 DPDSMI 89
+P+SMI
Sbjct: 270 EPESMI 275
>pdb|2RPP|A Chain A, Solution Structure Of Tandem Zinc Finger Domain 12 In
Muscleblind-Like Protein 2
Length = 89
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 35 VCKHWLRGLCKKGD-QCEFLH-----EYDMTKMPECYFYSRFNACHNKECPFLH 82
VC+ + RG C + D +C+F H + + ++ C F S C + C +LH
Sbjct: 19 VCRQFQRGTCSRSDEECKFAHPPKSCQVENGRVIAC-FDSLKGRCSRENCKYLH 71
>pdb|2E5S|A Chain A, Solution Structure Of The Zf-Ccchx2 Domain Of
Muscleblind- Like 2, Isoform 1 [homo Sapiens]
Length = 98
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 11/74 (14%)
Query: 28 ITGDRSVVCKHWLRGLCKKGD-QCEFLHEYDMTKMPE-------CYFYSRFNACHNKECP 79
+ D+ VC+ + RG C +G+ C F H D T + C Y + C ++C
Sbjct: 15 LRTDKLEVCREFQRGNCARGETDCRFAHPADSTMIDTSDNTVTVCMDYIK-GRCMREKCK 73
Query: 80 FLHIDPDSMIEASV 93
+ H P + ++A +
Sbjct: 74 YFH--PPAHLQAKI 85
>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
Protein
Length = 98
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/68 (19%), Positives = 32/68 (47%), Gaps = 7/68 (10%)
Query: 32 RSVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSRFNACHNKECPFLHIDPDSMIEA 91
+ +CK ++ G C + + C ++H P +++ N + +C F H D + E
Sbjct: 12 KRELCKFYITGFCARAENCPYMH----GDFPCKLYHTTGNCINGDDCMFSH---DPLTEE 64
Query: 92 SVGMVHRV 99
+ ++ ++
Sbjct: 65 TRELLDKM 72
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
0.328 0.143 0.495
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,425,041
Number of Sequences: 62578
Number of extensions: 125056
Number of successful extensions: 299
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 286
Number of HSP's gapped (non-prelim): 18
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)