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= 013781
(436 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 = 178 bits (451), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 83/138 (60%), Positives = 102/138 (73%), Gaps = 1/138 (0%)
Query: 13 DAFYRYKMPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEK 72
D FYRYKMP++I K+EG+GNGIKT IVNMVD+AKAL RP +Y TKYFGCELGAQ++FD K
Sbjct: 11 DQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVK 70
Query: 73 TGTSLVNGSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIIT-KTQMIQLKCAACGFVSD 131
+VNGSH+ KL +L+ FIKK+V C C NPET++ + K Q I C ACG+
Sbjct: 71 NDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYRGM 130
Query: 132 VDMRDKLNTFILKNPPES 149
+D KL TFILKNPPE+
Sbjct: 131 LDTHHKLCTFILKNPPEN 148
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 178 bits (451), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 83/138 (60%), Positives = 102/138 (73%), Gaps = 1/138 (0%)
Query: 13 DAFYRYKMPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEK 72
D FYRYKMP++I K+EG+GNGIKT IVNMVD+AKAL RP +Y TKYFGCELGAQ++FD K
Sbjct: 18 DQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVK 77
Query: 73 TGTSLVNGSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIIT-KTQMIQLKCAACGFVSD 131
+VNGSH+ KL +L+ FIKK+V C C NPET++ + K Q I C ACG+
Sbjct: 78 NDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYRGM 137
Query: 132 VDMRDKLNTFILKNPPES 149
+D KL TFILKNPPE+
Sbjct: 138 LDTHHKLCTFILKNPPEN 155
>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 = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 57/111 (51%), Gaps = 7/111 (6%)
Query: 17 RYKMPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEKTGTS 76
R+++P + IEG KT I N DIA AL R + K+ E+ + +
Sbjct: 29 RFEVPGALVTIEGN----KTIIENFKDIADALNRDPQHLLKFLLREIATAGTLEGRR--V 82
Query: 77 LVNGSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIITKTQMIQLKCAACG 127
++ G +A L+ +IK+YV C CG+P+T+ II + + LKC ACG
Sbjct: 83 VLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTK-IIKRDRFHFLKCEACG 132
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 54.3 bits (129), Expect = 1e-07, Method: Composition-based stats.
Identities = 33/111 (29%), Positives = 58/111 (52%), Gaps = 7/111 (6%)
Query: 17 RYKMPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEKTGTS 76
R+++PK + I+G +T I N ++A AL R + K+ ELG + G +
Sbjct: 27 RFEVPKAYSVIQGN----RTFIQNFREVADALNRDPQHLLKFLLRELGTAGNLE--GGRA 80
Query: 77 LVNGSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIITKTQMIQLKCAACG 127
++ G + +E+++ K+V C+ C P+T II + ++ LKC ACG
Sbjct: 81 ILQGKFTHFLINERIEDYVNKFVICHECNRPDTR-IIREGRISLLKCEACG 130
>pdb|2IU1|A Chain A, Crystal Structure Of Eif5 C-Terminal Domain
Length = 208
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 359 QLLLLRAIEAFCGKSSSYATKEVALVLKALYDSDVLEEEYIVQWYQEGLKGGSKNS---Q 415
Q LL +E + ++ +LK +YD+D+LEEE I+ W ++ K +
Sbjct: 80 QRYLLHGLECVVAMHQAQLISKIPHILKEMYDADLLEEEVIISWSEKASKKYVSKELAKE 139
Query: 416 IWKNAKPFIEWLQSA 430
I A+PFI+WL+ A
Sbjct: 140 IRVKAEPFIKWLKEA 154
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 50/108 (46%), Gaps = 6/108 (5%)
Query: 20 MPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEKTGTSLVN 79
+P MI I GN T I N + + R KY EL A D+K G ++
Sbjct: 29 LPNMI--ILNIGNT--TIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDK-GELVIQ 83
Query: 80 GSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIITKTQMIQLKCAACG 127
G + + L+E F+K YV+C C + +T I+ + + + C ACG
Sbjct: 84 GKFSSQVINTLMERFLKAYVECSTCKSLDT-ILKKEKKSWYIVCLACG 130
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 50/108 (46%), Gaps = 6/108 (5%)
Query: 20 MPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEKTGTSLVN 79
+P MI I GN T I N + + R KY EL A D+K G ++
Sbjct: 30 LPNMI--ILNIGNT--TIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDK-GELVIQ 84
Query: 80 GSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIITKTQMIQLKCAACG 127
G + + L+E F+K YV+C C + +T I+ + + + C ACG
Sbjct: 85 GKFSSQVINTLMERFLKAYVECSTCKSLDT-ILKKEKKSWYIVCLACG 131
>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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 50/108 (46%), Gaps = 6/108 (5%)
Query: 20 MPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYTTKYFGCELGAQSKFDEKTGTSLVN 79
+P MI I GN T I N + + R KY EL A D+K G ++
Sbjct: 37 LPNMI--ILNIGN--TTIIRNFAEYCDRIRREDKICMKYLLKELAAPGNVDDK-GELVIQ 91
Query: 80 GSHDTAKLAGLLENFIKKYVQCYGCGNPETEIIITKTQMIQLKCAACG 127
G + + L+E F+K YV+C C + +T I+ + + + C ACG
Sbjct: 92 GKFSSQVINTLMERFLKAYVECSTCKSLDT-ILKKEKKSWYIVCLACG 138
>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 = 35.8 bits (81), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 9/75 (12%)
Query: 362 LLRAIEAFCGKSSSYATKEVALVLKALYDSDVLEEEYIVQWYQEGLKGGSK------NSQ 415
+ IE F G + +L LY++D++ EE I+++ G K K + +
Sbjct: 89 FMGGIERFLGLEHKDLIPLLPKILVQLYNNDIISEEEIMRF---GTKSSKKFVPKEVSKK 145
Query: 416 IWKNAKPFIEWLQSA 430
+ + AKPFI WL++A
Sbjct: 146 VRRAAKPFITWLETA 160
>pdb|1PAQ|A Chain A, Crystal Structure Of The Catalytic Fragment Of Eukaryotic
Initiation Factor 2b Epsilon
Length = 189
Score = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 385 LKALYDSDVLEEEYIVQWYQEGLKGGSKNSQIWKNAKPFIEWLQSAE 431
L +LYD+D++EE+ I +W+ + + + ++ K ++EWLQ+A+
Sbjct: 136 LVSLYDNDIIEEDVIYKWW-DNVSTDPRYDEVKKLTVKWVEWLQNAD 181
>pdb|1K81|A Chain A, Nmr Structure Of The Zinc-Ribbon Domain Within Translation
Initiation Factor 2 Subunit Beta
Length = 36
Score = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 101 CYGCGNPETEIIITKTQMIQLKCAACGFVSDVDM 134
C CG P+T+II + ++ LKC ACG + + M
Sbjct: 3 CRECGKPDTKII-KEGRVHLLKCMACGAIRPIRM 35
>pdb|3MOI|A Chain A, The Crystal Structure Of The Putative Dehydrogenase From
Bordetella Bronchiseptica Rb50
Length = 387
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 255 LSTDESENKAKATSKAVSSPKGSHAENGNSQSHENLVDELKANLQKSITG 304
LS DE++ +A +A G H G S+SH+ +V L+A +Q+ G
Sbjct: 99 LSRDEADRMIEAVERA-----GVHLVVGTSRSHDPVVRTLRAIVQEGSVG 143
>pdb|2VYN|D Chain D, Structure Of E.Coli Gapdh Rat Sperm Gapdh Heterotetramer
pdb|2VYV|D Chain D, Structure Of E.Coli Gapdh Rat Sperm Gapdh Heterotetramer
Length = 334
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 20 MPKMITKIEGRGNGIKTNIVNMVDIAKALARPASYT 55
+P++ K+ G + T V++VD+ LA+PASYT
Sbjct: 219 IPELNGKLTGMAFRVPTPNVSVVDLTCRLAQPASYT 254
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
0.310 0.126 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,691,176
Number of Sequences: 62578
Number of extensions: 437190
Number of successful extensions: 1025
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1008
Number of HSP's gapped (non-prelim): 32
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)