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= 024288
(269 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 = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 42/93 (45%), Gaps = 26/93 (27%)
Query: 86 ITNIFFKTRLCAKF-KHGACRNGENCNFAHGMEDLRQPPPNWQELVGGGRAEEDRSSGGN 144
T+ +KT LC + + G CR G C FAHG+ +LRQ
Sbjct: 5 TTSSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQA---------------------- 42
Query: 145 WDDDQKIIHKMKLCKKFYNGEECPYGDRCNFLH 177
++ +K +LC KF CPYG RC+F+H
Sbjct: 43 ---NRHPKYKTELCHKFKLQGRCPYGSRCHFIH 72
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 20/25 (80%), Gaps = 1/25 (4%)
Query: 230 WKTKLCIKW-TQGQCPFGEKCHFAH 253
+KT+LC K+ QG+CP+G +CHF H
Sbjct: 48 YKTELCHKFKLQGRCPYGSRCHFIH 72
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 221 GSNCVKPVYWKTKLCIKWTQ-GQCPFGEKCHFAHG 254
GS+ +KT+LC +++ G+C +G KC FAHG
Sbjct: 1 GSHMTTSSRYKTELCRTYSESGRCRYGAKCQFAHG 35
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 26/88 (29%)
Query: 91 FKTRLCAKFKH-GACRNGENCNFAHGMEDLRQPPPNWQELVGGGRAEEDRSSGGNWDDDQ 149
+KT LC F+ G C+ GE C FAHG +LR + +
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHGFHELRSLTRHPK---------------------- 41
Query: 150 KIIHKMKLCKKFYNGEECPYGDRCNFLH 177
+K +LC+ F+ CPYG RC+F+H
Sbjct: 42 ---YKTELCRTFHTIGFCPYGPRCHFIH 66
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 37/102 (36%), Gaps = 40/102 (39%)
Query: 153 HKMKLCKKFYNGEECPYGDRCNFLHEDPAKFRDDSGRYRESSAISIGTTGPPVVTGSCSN 212
+K +LC+ F C YG++C F H
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAH----------------------------------- 28
Query: 213 QAEGNRPVGSNCVKPVYWKTKLCIKW-TQGQCPFGEKCHFAH 253
G + S P Y KT+LC + T G CP+G +CHF H
Sbjct: 29 ---GFHELRSLTRHPKY-KTELCRTFHTIGFCPYGPRCHFIH 66
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/26 (53%), Positives = 19/26 (73%), Gaps = 1/26 (3%)
Query: 230 WKTKLCIKWTQ-GQCPFGEKCHFAHG 254
+KT+LC + + G C +GEKC FAHG
Sbjct: 4 YKTELCRPFEESGTCKYGEKCQFAHG 29
>pdb|1JE6|A Chain A, Structure Of The Mhc Class I Homolog Micb
Length = 275
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 194 SAISIGTTGPPVVTGSCSNQAEGNRPVGSNCVKPVYWKTKLCIKWTQ 240
S ++I T PP+V +CS +EGN V C ++ + + W Q
Sbjct: 175 SGVAIRRTVPPMVNVTCSEVSEGNITV--TCRASSFYPRNITLTWRQ 219
>pdb|2WY3|A Chain A, Structure Of The Hcmv Ul16-Micb Complex Elucidates Select
Binding Of A Viral Immunoevasin To Diverse Nkg2d Ligands
pdb|2WY3|C Chain C, Structure Of The Hcmv Ul16-Micb Complex Elucidates Select
Binding Of A Viral Immunoevasin To Diverse Nkg2d Ligands
Length = 319
Score = 30.8 bits (68), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 194 SAISIGTTGPPVVTGSCSNQAEGNRPVGSNCVKPVYWKTKLCIKWTQ 240
S ++I T PP+V +CS +EGN V C ++ + + W Q
Sbjct: 175 SGVAIRRTVPPMVNVTCSEVSEGNITV--TCRASSFYPRNITLTWRQ 219
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 4/48 (8%)
Query: 95 LCAKFKHGACRNGENCNFAHGMEDLRQPPPNWQELVGGGRAEEDRSSG 142
+C ++ +G C G +C FAHG +L + W+E + + +++SG
Sbjct: 22 ICDRYMNGTCPEGNSCKFAHGNAELHE----WEERRDALKMKLNKASG 65
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 234 LCIKWTQGQCPFGEKCHFAHGQSGI 258
+C ++ G CP G C FAHG + +
Sbjct: 22 ICDRYMNGTCPEGNSCKFAHGNAEL 46
>pdb|4II1|A Chain A, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|B Chain B, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|C Chain C, Crystal Structure Of The Zinc Finger Of Zgpat
pdb|4II1|D Chain D, Crystal Structure Of The Zinc Finger Of Zgpat
Length = 167
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 215 EGNRPVGSNCVKPVYWKTKLCIKWTQGQCPFGEKCHFAHGQ 255
+G+ V + P + K C + +G+C F E C F+HGQ
Sbjct: 59 DGSAGVRVLYLYPTHKSLKPCPFFLEGKCRFKENCRFSHGQ 99
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 96 CAKFKHGACRNGENCNFAHG----MEDLR 120
C F G CR ENC F+HG +++LR
Sbjct: 79 CPFFLEGKCRFKENCRFSHGQVVSLDELR 107
>pdb|4AH2|B Chain B, Hla-Dr1 With Covalently Linked Clip106-120 In Canonical
Orientation
Length = 229
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 146 DDDQKIIHKMKLCKKFYNG-EECPYGDRCNFLHEDPAKFRDDSGRYRESSAI 196
D + + ++K F+NG E +RC + E+ +F D G YR + +
Sbjct: 33 DTRPRFLWQLKFECHFFNGTERVRLLERCIYNQEESVRFDSDVGEYRAVTEL 84
>pdb|2H00|A Chain A, Human Methyltransferase 10 Domain Containing Protein
pdb|2H00|B Chain B, Human Methyltransferase 10 Domain Containing Protein
pdb|2H00|C Chain C, Human Methyltransferase 10 Domain Containing Protein
Length = 254
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 120 RQPPPNWQELVGGGRAEEDRSSGGNWDDDQKIIHKMKLCKKFYNGEECPYGDRCNF 175
R+PPP+ V G E + GG + ++IIH KK C G +C+
Sbjct: 166 RRPPPSS---VNTGGITEIMAEGGELEFVKRIIHDSLQLKKRLRWYSCMLGKKCSL 218
>pdb|3R3S|A Chain A, Structure Of The Ygha Oxidoreductase From Salmonella
Enterica
pdb|3R3S|B Chain B, Structure Of The Ygha Oxidoreductase From Salmonella
Enterica
pdb|3R3S|C Chain C, Structure Of The Ygha Oxidoreductase From Salmonella
Enterica
pdb|3R3S|D Chain D, Structure Of The Ygha Oxidoreductase From Salmonella
Enterica
Length = 294
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 27 VWPQFSMSDEQQYDRLSQYDQQPPFKR 53
+W +S Q D++ Q+ QQ P KR
Sbjct: 232 IWTALQISGGQTQDKIPQFGQQTPMKR 258
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 92 KTRLCAKFKHGACRNGENCNFAHGMEDLRQP 122
KT +C + G C+ G+ C F H + + P
Sbjct: 9 KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMP 39
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
0.318 0.136 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,812,081
Number of Sequences: 62578
Number of extensions: 373329
Number of successful extensions: 1118
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1094
Number of HSP's gapped (non-prelim): 33
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)