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= 018874
(349 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 26/104 (25%), Positives = 40/104 (38%), Gaps = 37/104 (35%)
Query: 158 TQRSYKGRHCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLXXXXXXXXXXXXXXXXN 217
T YK C+ + C YG C F H
Sbjct: 6 TSSRYKTELCRTYSESGRCRYGAKCQFAH------------------------------- 34
Query: 218 NIGVSNVKPSN----WKTRICNKWELTGYCPFGNKCHFAHGIQE 257
G+ ++ +N +KT +C+K++L G CP+G++CHF H E
Sbjct: 35 --GLGELRQANRHPKYKTELCHKFKLQGRCPYGSRCHFIHNPTE 76
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 28/102 (27%), Positives = 38/102 (37%), Gaps = 39/102 (38%)
Query: 87 FKTKLCCKF-RNGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQ 145
+KT+LC + +G C Y C FAH + ELR+ N P+
Sbjct: 10 YKTELCRTYSESGRCRYGAKCQFAHGLGELRQ------------------ANRHPK---- 47
Query: 146 IPSIVSTNFAVETQRSYKGRHCKKFYTEEGCPYGENCTFLHD 187
YK C KF + CPYG C F+H+
Sbjct: 48 ----------------YKTELCHKFKLQGRCPYGSRCHFIHN 73
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 227 SNWKTRICNKWELTGYCPFGNKCHFAHGIQELHR 260
S +KT +C + +G C +G KC FAHG+ EL +
Sbjct: 8 SRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQ 41
Score = 31.6 bits (70), Expect = 0.65, Method: Composition-based stats.
Identities = 14/29 (48%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 87 FKTKLCCKFR-NGTCPYITNCNFAHSIEE 114
+KT+LC KF+ G CPY + C+F H+ E
Sbjct: 48 YKTELCHKFKLQGRCPYGSRCHFIHNPTE 76
>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 = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 24/96 (25%), Positives = 32/96 (33%), Gaps = 29/96 (30%)
Query: 162 YKGRHCKKFYTEEGCPYGENCTFLHDEQSKNRESVAISLXXXXXXXXXXXXXXXXNNIGV 221
YK C+ F C YGE C F H
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHGFHELR----------------------------- 34
Query: 222 SNVKPSNWKTRICNKWELTGYCPFGNKCHFAHGIQE 257
S + +KT +C + G+CP+G +CHF H E
Sbjct: 35 SLTRHPKYKTELCRTFHTIGFCPYGPRCHFIHNADE 70
Score = 41.2 bits (95), Expect = 0.001, Method: Composition-based stats.
Identities = 28/102 (27%), Positives = 37/102 (36%), Gaps = 39/102 (38%)
Query: 87 FKTKLCCKFR-NGTCPYITNCNFAHSIEELRRPPPNWQEIVAAHEEERASTNEIPREEFQ 145
+KT+LC F +GTC Y C FAH ELR
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHGFHELR----------------------------- 34
Query: 146 IPSIVSTNFAVETQRSYKGRHCKKFYTEEGCPYGENCTFLHD 187
++ YK C+ F+T CPYG C F+H+
Sbjct: 35 ---------SLTRHPKYKTELCRTFHTIGFCPYGPRCHFIHN 67
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 15/32 (46%), Positives = 21/32 (65%)
Query: 227 SNWKTRICNKWELTGYCPFGNKCHFAHGIQEL 258
+ +KT +C +E +G C +G KC FAHG EL
Sbjct: 2 TRYKTELCRPFEESGTCKYGEKCQFAHGFHEL 33
Score = 28.9 bits (63), Expect = 4.2, Method: Composition-based stats.
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 87 FKTKLCCKFRN-GTCPYITNCNFAHSIEE 114
+KT+LC F G CPY C+F H+ +E
Sbjct: 42 YKTELCRTFHTIGFCPYGPRCHFIHNADE 70
>pdb|2D9M|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 3 In
Zinc Finger Ccch-Type Domain Containing 7a
Length = 69
Score = 34.7 bits (78), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 233 ICNKWELTGYCPFGNKCHFAHGIQELHRF 261
IC+++ + G CP GN C FAHG ELH +
Sbjct: 22 ICDRY-MNGTCPEGNSCKFAHGNAELHEW 49
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 91 LCCKFRNGTCPYITNCNFAHSIEELRRPPPNWQE 124
+C ++ NGTCP +C FAH EL W+E
Sbjct: 22 ICDRYMNGTCPEGNSCKFAHGNAELHE----WEE 51
>pdb|3QR6|A Chain A, Crystal Structure Analysis Of H185f Mutant Of Human Clic1
Length = 241
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 11/85 (12%)
Query: 55 QTRSNSEQPPNKKSRNGSQDVNSKSKAIGKMFFKTKLCCKFRNGTCP--------YITNC 106
+T + E +K +G++ + + K+F +C K+R T P Y++N
Sbjct: 154 ETSAEDEGVSQRKFLDGNELTLADCNLLPKLFIVQVVCKKYRGFTIPEAFRGVHRYLSN- 212
Query: 107 NFAHSIEELRRPPPNWQEIVAAHEE 131
A++ EE P+ +EI A+E+
Sbjct: 213 --AYAREEFASTCPDDEEIELAYEQ 235
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
0.313 0.130 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,151,963
Number of Sequences: 62578
Number of extensions: 450006
Number of successful extensions: 820
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 799
Number of HSP's gapped (non-prelim): 28
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)