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= 004043
(777 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HU3|A Chain A, Middle Domain Of Human Eif4gii
Length = 260
Score = 161 bits (408), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 101/260 (38%), Positives = 151/260 (58%), Gaps = 23/260 (8%)
Query: 198 VLKTVKGILNKLTPEKFDVLKGQLIDSGITTPDILKGVIELIFDKAVLEPTFCPMYALLC 257
+ + V+ ILNKLTP+ F+ L Q+ + T + LKGVI+L+F+KA+ EP+F YA C
Sbjct: 11 LFRKVRSILNKLTPQXFNQLXKQVSGLTVDTEERLKGVIDLVFEKAIDEPSFSVAYANXC 70
Query: 258 SDL-NEKLPPFPSDEPGGKDITFKRILLNHCQEAFE--GADN-----TRAEIRQMTAPEQ 309
L K+P +D+PG + F+++LLN CQ+ FE AD+ + E+ +APE+
Sbjct: 71 RCLVTLKVP--XADKPGNT-VNFRKLLLNRCQKEFEKDKADDDVFEKKQKELEAASAPEE 127
Query: 310 EMERMDQ----ERLVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLENDGKTCPAEEN 365
D+ + + R++GNI+ IGEL K K + E I H V +LL+N EE+
Sbjct: 128 RTRLHDELEEAKDKARRRSIGNIKFIGELFKLKXLTEAIXHDCVVKLLKNHD-----EES 182
Query: 366 VEAICQFFNTIGKQLD-ENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLRANN 424
+E +C+ TIGK LD E K R D YF++ +++ + R+RF + DV+DLR N
Sbjct: 183 LECLCRLLTTIGKDLDFEKAKPR--XDQYFNQXEKIVKERKTSSRIRFXLQDVIDLRLCN 240
Query: 425 WVPRREEMKAKTITEIHSEA 444
WV RR + KTI +IH EA
Sbjct: 241 WVSRRADQGPKTIEQIHKEA 260
>pdb|2VSO|E Chain E, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|F Chain F, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|E Chain E, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|F Chain F, Crystal Structure Of A Translation Initiation Complex
Length = 284
Score = 92.0 bits (227), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 75/260 (28%), Positives = 129/260 (49%), Gaps = 27/260 (10%)
Query: 189 RGNLSEKDRVLKTVKGILNKLTPEKFDVLKGQL-----IDSGITTPDILKGVIELIFDKA 243
+ L +KD V + +K +LNKLT E FD + ++ I T + LK VIE IF KA
Sbjct: 27 KTELLDKDEVERKMKSLLNKLTLEMFDAISSEILAIANISVWETNGETLKAVIEQIFLKA 86
Query: 244 VLEPTFCPMYALLCSDLNEKLPPFPSDEPG-GKDITFKRILLNH----CQEAFEGADNTR 298
EP + MYA LC + ++L P +DE GK T +++L++ C F+ +
Sbjct: 87 CDEPHWSSMYAQLCGKVVKELNPDITDETNEGK--TGPKLVLHYLVARCHAEFDKGWTDK 144
Query: 299 AEIRQMTAPEQEMERMDQERL----VKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLE 354
+ P E E M +E K R LG +R IG L + ++ K++ + L++
Sbjct: 145 LPTNEDGTP-LEPEMMSEEYYAAASAKRRGLGLVRFIGFLYRLNLLTGKMMFECFRRLMK 203
Query: 355 NDGKTCPAEENVEAICQFFNTIGKQLDENP--------KSRRVNDVYFSRLKELTTNSQL 406
D P+EE +E++ + NT+G+Q + + + ++ D F L + +++
Sbjct: 204 -DLTDSPSEETLESVVELLNTVGEQFETDSFRTGQATLEGSQLLDSLFGILDNIIQTAKI 262
Query: 407 VPRLRFMIHDVLDLRAN-NW 425
R++F + D+ +LR + NW
Sbjct: 263 SSRIKFKLIDIKELRHDKNW 282
>pdb|1UG3|A Chain A, C-Terminal Portion Of Human Eif4gi
pdb|1UG3|B Chain B, C-Terminal Portion Of Human Eif4gi
Length = 339
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%)
Query: 611 DLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQL 670
+L KK+ +++EEY + + EA+QCV+EL +P+ V+ + LE+ E + QL
Sbjct: 9 ELEKKSKAIIEEYLHLNDMKEAVQCVQELASPSLLFIFVRHGVESTLERSAIAREHMGQL 68
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMV 714
L LL L+T G L +D+ ID+P E+V
Sbjct: 69 LHQLLCAGHLSTAQYYQGLYEILELAEDMEIDIPHVWLYLAELV 112
>pdb|3RK6|A Chain A, Crystal Structure Of The Middle Domain Of Human Paip1
pdb|3RK6|B Chain B, Crystal Structure Of The Middle Domain Of Human Paip1
Length = 234
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/99 (32%), Positives = 50/99 (50%), Gaps = 11/99 (11%)
Query: 202 VKGILNKLT--PEKFDVLKGQL---IDSGITTPDILKGVIELIFDKAVLEPTFCPMYALL 256
V+ LN LT P F+ Q ++ +TT D L+ ++ELI+ +A P F M A L
Sbjct: 23 VQDFLNHLTEQPGSFETEIEQFAETLNGCVTTDDALQELVELIYQQATSIPNFSYMGARL 82
Query: 257 CSDLNEKLPPFPSDEPGGKDITFKRILLNHCQEAFEGAD 295
C+ L+ L P + G F+++LL C+ +E D
Sbjct: 83 CNYLSHHLTISP--QSG----NFRQLLLQRCRTEYEVKD 115
>pdb|2ION|A Chain A, Crystal Structure Of The C-terminal Ma3 Domain Of Pdcd4
(mouse); Form2
Length = 152
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 8 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 67
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 68 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 103
>pdb|2KZT|B Chain B, Structure Of The Tandem Ma-3 Region Of Pdcd4
Length = 131
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 9 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 68
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 69 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 104
>pdb|2HM8|A Chain A, Solution Structure Of The C-Terminal Ma-3 Domain Of Pdcd4
Length = 136
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 14 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 73
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 74 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 109
>pdb|2NSZ|A Chain A, 1.15 Angstrom Crystal Structure Of The Ma3 Domain Of Pdcd4
Length = 129
Score = 44.3 bits (103), Expect = 3e-04, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 6 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 65
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 66 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 101
>pdb|3EIQ|C Chain C, Crystal Structure Of Pdcd4-eif4a
Length = 358
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 216 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 275
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 276 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 311
>pdb|2GGF|A Chain A, Solution Structure Of The Ma3 Domain Of Human Programmed
Cell Death 4
Length = 137
Score = 43.9 bits (102), Expect = 4e-04, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 8 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIIMVLESTGESTFKMILDL 67
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 68 LKSLWKSSTITVDQMKRGYERIYNEIPDINLDVPHS 103
>pdb|3EIJ|A Chain A, Crystal Structure Of Pdcd4
pdb|3EIJ|B Chain B, Crystal Structure Of Pdcd4
Length = 321
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 49/96 (51%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI + LE + ++ L
Sbjct: 179 LVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIIMVLESTGESTFKMILDL 238
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 239 LKSLWKSSTITVDQMKRGYERIYNEIPDINLDVPHS 274
>pdb|2IOL|A Chain A, Crystal Structure Of The C-Terminal Ma3 Domain Of Pdcd4
(Mouse); Form 1
pdb|2IOL|B Chain B, Crystal Structure Of The C-Terminal Ma3 Domain Of Pdcd4
(Mouse); Form 1
Length = 150
Score = 42.4 bits (98), Expect = 0.001, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI LE + ++ L
Sbjct: 8 LVKEIDXLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVXVLESTGESAFKXILDL 67
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T G + + DI +D+P +
Sbjct: 68 LKSLWKSSTITIDQXKRGYERIYNEIPDINLDVPHS 103
>pdb|2ZU6|B Chain B, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|E Chain E, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 307
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA C++EL P +H E+V EAI LE + ++ L
Sbjct: 165 LVKEIDXLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIIXVLESTGESTFKXILDL 224
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T G + + DI +D+P +
Sbjct: 225 LKSLWKSSTITVDQXKRGYERIYNEIPDINLDVPHS 260
>pdb|2IOS|A Chain A, Crystal Structure Of The C-Terminal Ma3 Domain Of Pdcd4
(Mouse); Form 3
Length = 150
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 48/96 (50%), Gaps = 1/96 (1%)
Query: 612 LRKKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKI-PPCVEPVIQL 670
L K+ LL+EY + EA ++EL P +H E+V EAI + LE + ++ L
Sbjct: 8 LVKEIDMLLKEYLLSGDISEAEHXLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDL 67
Query: 671 LEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKA 706
L+ L + +T + G + + DI +D+P +
Sbjct: 68 LKSLWKSSTITIDQMKRGYERIYNEIPDINLDVPHS 103
>pdb|3L6A|A Chain A, Crystal Structure Of The C-Terminal Region Of Human P97
Length = 364
Score = 33.5 bits (75), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/112 (21%), Positives = 54/112 (48%), Gaps = 1/112 (0%)
Query: 611 DLRKKTVSLLEEYFSIRILDEALQCVEELRAPTYH-PEVVKEAIALALEKIPPCVEPVIQ 669
+L K T +++ EY + +EA+ V E+RAP + PE++ + I L+L++ E
Sbjct: 10 ELLKLTETVVTEYLNSGNANEAVNGVREMRAPKHFLPEMLSKVIILSLDRSDEDKEKASS 69
Query: 670 LLEFLLNKNVLTTRDIGTGCLLYGSLLDDIGIDLPKAPNNFGEMVGKLVVAK 721
L+ L + + T+ + L + +D+P + + + ++++
Sbjct: 70 LISLLKQEGIATSDNFMQAFLNVLDQCPKLEVDIPLVKSYLAQFAARAIISE 121
>pdb|3TL4|X Chain X, Crystal Structure Of The Trna Binding Domain Of
Glutaminyl-Trna Synthetase From Saccharomyces Cerevisiae
Length = 187
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 365 NVEAICQFFNTIG---KQLDENPKSRRVNDVYFSRLKELTTNSQLVPRLRFMIHDVLDLR 421
+VE + Q F+ +G K++ E K+++V+D + +KE ++ Q R ++H++
Sbjct: 3 SVEELTQLFSQVGFEDKKVKEIVKNKKVSDSLYKLIKETPSDYQWNKSTRALVHNLASFV 62
Query: 422 ANNWVPRRE 430
+P+ E
Sbjct: 63 KGTDLPKSE 71
>pdb|2KZT|A Chain A, Structure Of The Tandem Ma-3 Region Of Pdcd4
Length = 163
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 48/108 (44%), Gaps = 7/108 (6%)
Query: 614 KKTVSLLEEYFSIRILDEALQCVEELRAPTYHPEVVKEAIALALEKIPPCVEPVIQLLEF 673
K +++EYF +E + + +L V A++LALE E +LL
Sbjct: 11 KTLTPIIQEYFEHGDTNEVAEMLRDLNLGEMKSGVPVLAVSLALEGKASHREMTSKLLSD 70
Query: 674 LLNKNVLTTRDIGTGCLLYGSLLDDI---GIDLPKAPNNFGEMVGKLV 718
L V++T D+ + LL D+ +D P+AP G+ + + V
Sbjct: 71 LCG-TVMSTTDVEKS---FDKLLKDLPELALDTPRAPQLVGQFIARAV 114
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
0.316 0.134 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,340,583
Number of Sequences: 62578
Number of extensions: 827790
Number of successful extensions: 2221
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2193
Number of HSP's gapped (non-prelim): 23
length of query: 777
length of database: 14,973,337
effective HSP length: 106
effective length of query: 671
effective length of database: 8,340,069
effective search space: 5596186299
effective search space used: 5596186299
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)