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= 005338
(701 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
Containing Protein 2
Length = 141
Score = 123 bits (308), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 66/134 (49%), Positives = 87/134 (64%), Gaps = 5/134 (3%)
Query: 263 RYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAKM 322
RYFI+KS N NLE+S Q+G+W+T SNE KLN AF + V L+FSV + HFQG ++M
Sbjct: 9 RYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSIVYLVFSVQGSGHFQGFSRM 68
Query: 323 TSKIGGSVGGGNWKYAHGTAHYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKISRDC 382
+S+IG +W G+A G F V+W++ L F HL NP+N+N V+ISRD
Sbjct: 69 SSEIGRE-KSQDW----GSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDG 123
Query: 383 QELEPSIGEQLAAL 396
QELEP +GEQL L
Sbjct: 124 QELEPQVGEQLLQL 137
>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
Containing Protein 1 (Putative Splicing Factor Yt521)
Length = 180
Score = 109 bits (272), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 61/138 (44%), Positives = 83/138 (60%), Gaps = 2/138 (1%)
Query: 262 SRYFIVKSCNRENLELSVQQGVWATQRSNEAKLNEAFDSAENVILIFSVNRTRHFQGCAK 321
+R+F++KS N EN+ L+ +GVW+T NE KLN AF SA +VILIFSV + FQG A+
Sbjct: 26 ARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFAR 85
Query: 322 MTSKIGGSVGGGNWKYAHGTA--HYGRNFSVKWLKLCELSFHKTRHLRNPYNENLPVKIS 379
++S+ +W G + G F + W+ EL F K+ HL NP+NE+ PVKI
Sbjct: 86 LSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIG 145
Query: 380 RDCQELEPSIGEQLAALL 397
RD QE+E G QL L
Sbjct: 146 RDGQEIELECGTQLCLLF 163
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 76.6 bits (187), Expect = 5e-14, Method: Composition-based stats.
Identities = 32/67 (47%), Positives = 44/67 (65%), Gaps = 2/67 (2%)
Query: 68 SGRRSFRQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNE 127
SG + VC+HWLR LC KGD C FLH+YD ++MP C F+ FGEC ++C + H +
Sbjct: 3 SGSSGEKTVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSKFGECSNKECPFLHIDP 62
Query: 128 D--IKEC 132
+ IK+C
Sbjct: 63 ESKIKDC 69
>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 = 74.3 bits (181), Expect = 2e-13, Method: Composition-based stats.
Identities = 27/57 (47%), Positives = 38/57 (66%)
Query: 74 RQTVCRHWLRSLCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIK 130
+ VC+HWLR LC KGD C FLH+YD ++M C F+ FGEC ++C + H + + K
Sbjct: 15 KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMSECYFYSKFGECSNKECPFLHIDPESK 71
>pdb|2RPP|A Chain A, Solution Structure Of Tandem Zinc Finger Domain 12 In
Muscleblind-Like Protein 2
Length = 89
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 77 VCRHWLRSLCMKGDA-CGFLH-----QYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIK 130
VCR + R C + D C F H Q + R+ C F L G C ++C Y H +K
Sbjct: 19 VCRQFQRGTCSRSDEECKFAHPPKSCQVENGRVIAC-FDSLKGRCSRENCKYLHPPTHLK 77
>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
Rich Element By The Tandem Zinc Finger Domain Of Tis11d
Length = 70
Score = 30.4 bits (67), Expect = 3.9, Method: Composition-based stats.
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 19/80 (23%)
Query: 73 FRQTVCRHWLRS-LCMKGDACGFLHQYDKSRMPVCRFFRLFGECREQDCVYKHTNEDIKE 131
++ +CR + S C G+ C F H + + R + +H +
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHGFHELR-----------------SLTRHPKYKTEL 46
Query: 132 CNMY-KLGFCPNGPDCRYRH 150
C + +GFCP GP C + H
Sbjct: 47 CRTFHTIGFCPYGPRCHFIH 66
>pdb|1QHX|A Chain A, Chloramphenicol Phosphotransferase In Complex With Atp
From Streptomyces Venezuelae
pdb|1QHY|A Chain A, Chloramphenicol Phosphotransferase From Streptomyces
Venezuelae In Complex With Atpgammas And
Chloramphenicol
pdb|1QHS|A Chain A, Chloramphenicol Phosphotransferase In Complex With
Chloramphenicol From Streptomyces Venezuelae
pdb|1GRQ|A Chain A, Chloramphenicol Phosphotransferase In Complex With
P-Amino- Chloramphenicol From Streptomyces Venezuelae
pdb|1GRR|A Chain A, Chloramphenicol Phosphotransferase In Complex With
2-Nac- Chloramphenicol From Streptomyces Venezuelae
Length = 178
Score = 29.6 bits (65), Expect = 6.1, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 1 MEDSEGGLSFDFEGGLDAGP 20
M+ +EGG+ FD +GG+ GP
Sbjct: 47 MQSAEGGIEFDADGGVSIGP 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
0.315 0.134 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,264,666
Number of Sequences: 62578
Number of extensions: 688751
Number of successful extensions: 1125
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1111
Number of HSP's gapped (non-prelim): 18
length of query: 701
length of database: 14,973,337
effective HSP length: 106
effective length of query: 595
effective length of database: 8,340,069
effective search space: 4962341055
effective search space used: 4962341055
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)