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= psy15553
(489 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 248 bits (632), Expect = 7e-66, Method: Compositional matrix adjust.
Identities = 114/145 (78%), Positives = 127/145 (87%)
Query: 3 TVNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCEL 62
+VNVNR+V D FYRYKMP+LIAKVEGKGNGIKTVIVNM DVAKA+ RPPTYPTKYFGCEL
Sbjct: 2 SVNVNRSVMDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCEL 61
Query: 63 GAQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQV 122
GAQT+ D KNDR+IVNGSH+ KLQD+LDGFI+KFVLCPEC+NPETDL V+ KK TI
Sbjct: 62 GAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNS 121
Query: 123 CKACGFHGMLQFNHKLNTFILKNPP 147
CKACG+ GML +HKL TFILKNPP
Sbjct: 122 CKACGYRGMLDTHHKLCTFILKNPP 146
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 247 bits (631), Expect = 8e-66, Method: Compositional matrix adjust.
Identities = 114/144 (79%), Positives = 127/144 (88%)
Query: 4 VNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCELG 63
VNVNR+V+D FYRYKMP+LIAKVEGKGNGIKTVIVNM DVAKA+ RPPTYPTKYFGCELG
Sbjct: 10 VNVNRSVSDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELG 69
Query: 64 AQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQVC 123
AQT+ D KNDR+IVNGSH+ KLQD+LDGFI+KFVLCPEC+NPETDL V+ KK TI C
Sbjct: 70 AQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSC 129
Query: 124 KACGFHGMLQFNHKLNTFILKNPP 147
KACG+ GML +HKL TFILKNPP
Sbjct: 130 KACGYRGMLDTHHKLCTFILKNPP 153
>pdb|2IU1|A Chain A, Crystal Structure Of Eif5 C-Terminal Domain
Length = 208
Score = 145 bits (366), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 87/195 (44%), Positives = 119/195 (61%), Gaps = 43/195 (22%)
Query: 234 LEKTEKERMDIFYTCVKTALEKNNVDA--KELLSEAERLEVKTKAPLILAELLFADEDKI 291
LE+T +ER++I + VK E+ +D+ KE+++EAERL+VK PL+L E+LF +KI
Sbjct: 1 LERTIEERVNILFDFVKKKKEEGVIDSSDKEIVAEAERLDVKAMGPLVLTEVLF--NEKI 58
Query: 292 PIQAKKHRILFFGSNQFTWRSVGFYRRQINTIATLINQCQLILLDKQSTVLRFTHEDIKA 351
Q KK YRR LRF H + KA
Sbjct: 59 REQIKK------------------YRRHF---------------------LRFCHNNKKA 79
Query: 352 QRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVSKELSAE 411
QRYLL+G+E V+A+H+ +L+S +P ILK YD D+LEE+V++ W+EK SKKYVSKEL+ E
Sbjct: 80 QRYLLHGLECVVAMHQAQLISKIPHILKEMYDADLLEEEVIISWSEKASKKYVSKELAKE 139
Query: 412 IRSRAEPFIKWLREA 426
IR +AEPFIKWL+EA
Sbjct: 140 IRVKAEPFIKWLKEA 154
>pdb|2FUL|A Chain A, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|B Chain B, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|C Chain C, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|D Chain D, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|E Chain E, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
pdb|2FUL|F Chain F, Crystal Structure Of The C-Terminal Domain Of S.
Cerevisiae Eif5
Length = 177
Score = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 49/75 (65%)
Query: 352 QRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVSKELSAE 411
++ + GIE+ + L + L+ ++P IL Y+ DI+ E+ ++ + K+SKK+V KE+S +
Sbjct: 86 EKNFMGGIERFLGLEHKDLIPLLPKILVQLYNNDIISEEEIMRFGTKSSKKFVPKEVSKK 145
Query: 412 IRSRAEPFIKWLREA 426
+R A+PFI WL A
Sbjct: 146 VRRAAKPFITWLETA 160
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 60/112 (53%), Gaps = 8/112 (7%)
Query: 16 RYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKLDHKNDRF 75
R+++PK + ++G +T I N +VA A+ R P + K+ ELG L+ R
Sbjct: 27 RFEVPKAYSVIQGN----RTFIQNFREVADALNRDPQHLLKFLLRELGTAGNLE--GGRA 80
Query: 76 IVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQVCKACG 127
I+ G + + ++ ++ KFV+C EC+ P+T ++ + ++ C+ACG
Sbjct: 81 ILQGKFTHFLINERIEDYVNKFVICHECNRPDTRIIREGRISLLK--CEACG 130
>pdb|2D74|B Chain B, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer
pdb|2DCU|B Chain B, Crystal Structure Of Translation Initiation Factor
Aif2betagamma Heterodimer With Gdp
Length = 148
Score = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 64/125 (51%), Gaps = 8/125 (6%)
Query: 9 NVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKL 68
NV R+++P + +EG KT+I N D+A A+ R P + K+ E+ L
Sbjct: 22 NVKHHKSRFEVPGALVTIEGN----KTIIENFKDIADALNRDPQHLLKFLLREIATAGTL 77
Query: 69 DHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQVCKACGF 128
+ + R ++ G + + L +I+++V+CP C +P+T ++ + ++ C+ACG
Sbjct: 78 EGR--RVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIKRDRFHFLK--CEACGA 133
Query: 129 HGMLQ 133
+Q
Sbjct: 134 ETPIQ 138
>pdb|3CW2|K Chain K, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|L Chain L, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|M Chain M, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|N Chain N, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus
Length = 139
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 32 GIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKLDHKNDRFIVNGSHDVVKLQDLLD 91
G T+I N A+ I R KY EL A +D K + ++ G + L++
Sbjct: 39 GNTTIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDKGE-LVIQGKFSSQVINTLME 97
Query: 92 GFIRKFVLCPECDNPETDLVVSAKKGTIQQVCKACG 127
F++ +V C C + D ++ +K + VC ACG
Sbjct: 98 RFLKAYVECSTCKS--LDTILKKEKKSWYIVCLACG 131
>pdb|2QMU|C Chain C, Structure Of An Archaeal Heterotrimeric Initiation Factor
2 Reveals A Nucleotide State Between The Gtp And The Gdp
States
pdb|3V11|C Chain C, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 138
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 32 GIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKLDHKNDRFIVNGSHDVVKLQDLLD 91
G T+I N A+ I R KY EL A +D K + ++ G + L++
Sbjct: 38 GNTTIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDKGE-LVIQGKFSSQVINTLME 96
Query: 92 GFIRKFVLCPECDNPETDLVVSAKKGTIQQVCKACG 127
F++ +V C C + D ++ +K + VC ACG
Sbjct: 97 RFLKAYVECSTCKS--LDTILKKEKKSWYIVCLACG 130
>pdb|2NXU|A Chain A, Atomic Structure Of Translation Initiation Factor Aif2
Beta-Subunit From Archaebacteria Sulfolobus
Solfataricus: High Resolution Nmr In Solution
Length = 146
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 32 GIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKLDHKNDRFIVNGSHDVVKLQDLLD 91
G T+I N A+ I R KY EL A +D K + ++ G + L++
Sbjct: 46 GNTTIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDKGE-LVIQGKFSSQVINTLME 104
Query: 92 GFIRKFVLCPECDNPETDLVVSAKKGTIQQVCKACG 127
F++ +V C C + D ++ +K + VC ACG
Sbjct: 105 RFLKAYVECSTCKS--LDTILKKEKKSWYIVCLACG 138
>pdb|3D3M|A Chain A, The Crystal Structure Of The C-Terminal Region Of Death
Associated Protein 5(Dap5)
pdb|3D3M|B Chain B, The Crystal Structure Of The C-Terminal Region Of Death
Associated Protein 5(Dap5)
Length = 168
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 45/100 (45%), Gaps = 4/100 (4%)
Query: 327 INQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDI 386
+ Q + +LL + + +F H+ + Q L + QV + M+ FYD +I
Sbjct: 73 LEQEKQLLLSFKPVMQKFLHDHVDLQVSALYAL-QVHCYNSNFPKGMLLRFFVHFYDMEI 131
Query: 387 LEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREA 426
+EE+ L W E ++++ K + + ++ WL A
Sbjct: 132 IEEEAFLAWKEDITQEFPGK---GKALFQVNQWLTWLETA 168
>pdb|3L6A|A Chain A, Crystal Structure Of The C-Terminal Region Of Human P97
Length = 364
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 45/100 (45%), Gaps = 4/100 (4%)
Query: 327 INQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDI 386
+ Q + +LL + + +F H+ + Q L + QV + M+ FYD +I
Sbjct: 269 LEQEKQLLLSFKPVMQKFLHDHVDLQVSALYAL-QVHCYNSNFPKGMLLRFFVHFYDMEI 327
Query: 387 LEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREA 426
+EE+ L W E ++++ K + + ++ WL A
Sbjct: 328 IEEEAFLAWKEDITQEFPGK---GKALFQVNQWLTWLETA 364
>pdb|3P8C|F Chain F, Structure And Control Of The Actin Regulatory Wave Complex
Length = 159
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 11/71 (15%)
Query: 308 FTWRSVGFYRRQINTIATLINQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHK 367
+T +S+ INT+A + Q +LD Q++ LR I N I Q + +HK
Sbjct: 54 YTTQSLASVAYLINTLANNVLQ----MLDIQASQLRRMESSI-------NHISQTVDIHK 102
Query: 368 EKLLSMVPGIL 378
EK+ GIL
Sbjct: 103 EKVARREIGIL 113
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: 14,177,452
Number of Sequences: 62578
Number of extensions: 576160
Number of successful extensions: 1582
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1535
Number of HSP's gapped (non-prelim): 45
length of query: 489
length of database: 14,973,337
effective HSP length: 103
effective length of query: 386
effective length of database: 8,527,803
effective search space: 3291731958
effective search space used: 3291731958
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: 53 (25.0 bits)