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= psy7490
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 107 bits (266), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 56/138 (40%), Positives = 84/138 (60%), Gaps = 6/138 (4%)
Query: 21 YTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKTLHRLP 80
Y YE+LL + ++ + P+ V K +F + P +V I KT NF +I L+R P
Sbjct: 6 YDYEKLLEKAYQEL----PENVKHHKSRFEV-PGALVTIEGNKTIIENFKDIADALNRDP 60
Query: 81 KHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQK 140
+HLL FLL E+ T+G+++G +++++GRF I N L++YIKEYV C C SPDT + K
Sbjct: 61 QHLLKFLLREIATAGTLEGR-RVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIK 119
Query: 141 DTRLFFLQCETCGSRCSV 158
R FL+CE CG+ +
Sbjct: 120 RDRFHFLKCEACGAETPI 137
>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 = 89.0 bits (219), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 76/139 (54%), Gaps = 6/139 (4%)
Query: 23 YEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKTLHRLPKH 82
Y E+L R++ + EK G+K+ P ++ T NF E C + R K
Sbjct: 14 YVEMLDRLYSKLPEK------GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 67
Query: 83 LLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDT 142
+ +LL EL G+VD +L+I+G+F + I ++ R++K YV C TC+S DTIL+K+
Sbjct: 68 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 127
Query: 143 RLFFLQCETCGSRCSVASI 161
+ +++ C CG++ V +
Sbjct: 128 KSWYIVCLACGAQTPVKPL 146
>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 = 89.0 bits (219), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/139 (32%), Positives = 76/139 (54%), Gaps = 6/139 (4%)
Query: 23 YEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKTLHRLPKH 82
Y E+L R++ + EK G+K+ P ++ T NF E C + R K
Sbjct: 6 YVEMLDRLYSKLPEK------GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 59
Query: 83 LLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDT 142
+ +LL EL G+VD +L+I+G+F + I ++ R++K YV C TC+S DTIL+K+
Sbjct: 60 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 119
Query: 143 RLFFLQCETCGSRCSVASI 161
+ +++ C CG++ V +
Sbjct: 120 KSWYIVCLACGAQTPVKPL 138
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 49/146 (33%), Positives = 82/146 (56%), Gaps = 8/146 (5%)
Query: 16 GSDRDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICKT 75
GS D YE+LL R + + P++ K+ + P I +T NF E+
Sbjct: 1 GSHMD-DYEKLLERAIDQL---PPEVFETKRFEV---PKAYSVIQGNRTFIQNFREVADA 53
Query: 76 LHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSPD 135
L+R P+HLL FLL ELGT+G+++G + I++G+F I + Y+ ++V CH C PD
Sbjct: 54 LNRDPQHLLKFLLRELGTAGNLEG-GRAILQGKFTHFLINERIEDYVNKFVICHECNRPD 112
Query: 136 TILQKDTRLFFLQCETCGSRCSVASI 161
T + ++ R+ L+CE CG++ + ++
Sbjct: 113 TRIIREGRISLLKCEACGAKAPLKNV 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 = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 46/147 (31%), Positives = 81/147 (55%), Gaps = 8/147 (5%)
Query: 15 IGSDRDYTYEELLSRVFEIMREKNPDMVAGKKQKFVMRPPQVVRIGTKKTSFANFTEICK 74
+ S+++Y E+L R++ + EK G+K+ P ++ T NF E C
Sbjct: 1 MSSEKEYV--EMLDRLYSKLPEK------GRKEGTQSLPNMIILNIGNTTIIRNFAEYCD 52
Query: 75 TLHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYVTCHTCRSP 134
+ R K + +LL EL G+VD +L+I+G+F + I ++ R++K YV C TC+S
Sbjct: 53 RIRREDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSL 112
Query: 135 DTILQKDTRLFFLQCETCGSRCSVASI 161
DTIL+K+ + +++ C CG++ V +
Sbjct: 113 DTILKKEKKSWYIVCLACGAQTPVKPL 139
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 63 KTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVD-GNSQLIIKGRFQQKQIENVLRRY 121
KT N ++ K L+R P + + ELG D N + I+ G + +++++L +
Sbjct: 40 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 99
Query: 122 IKEYVTCHTCRSPDTILQKDTRLFFL--QCETCGSR 155
IK++V C C +P+T L + + + C+ CG R
Sbjct: 100 IKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYR 135
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 49/96 (51%), Gaps = 3/96 (3%)
Query: 63 KTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVD-GNSQLIIKGRFQQKQIENVLRRY 121
KT N ++ K L+R P + + ELG D N + I+ G + +++++L +
Sbjct: 33 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 92
Query: 122 IKEYVTCHTCRSPDTILQKDTRLFFL--QCETCGSR 155
IK++V C C +P+T L + + + C+ CG R
Sbjct: 93 IKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYR 128
>pdb|1K8B|A Chain A, Nmr Structure Analysis Of The N-Terminal Domain Of
Archaeal Translation Initiation Factor 2 Subunit Beta
Length = 52
Score = 30.4 bits (67), Expect = 0.71, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 57 VRIGTKKTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGR 108
+ I +T NF E+ K ++R + +LL E G++G+++G +LI++ R
Sbjct: 2 ILIEGNRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEG-GRLILQRR 52
>pdb|3TQH|A Chain A, Structure Of The Quinone Oxidoreductase From Coxiella
Burnetii
Length = 321
Score = 30.0 bits (66), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 129 HTCRSPDTILQKDTRLFFLQCET 151
+ C SPDTI+QK +L FLQ +
Sbjct: 111 YVCASPDTIIQKLEKLSFLQAAS 133
>pdb|1K81|A Chain A, Nmr Structure Of The Zinc-Ribbon Domain Within Translation
Initiation Factor 2 Subunit Beta
Length = 36
Score = 29.6 bits (65), Expect = 1.2, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 128 CHTCRSPDTILQKDTRLFFLQCETCGS 154
C C PDT + K+ R+ L+C CG+
Sbjct: 3 CRECGKPDTKIIKEGRVHLLKCMACGA 29
>pdb|2JGU|A Chain A, Crystal Structure Of Dna-directed Dna Polymerase
Length = 775
Score = 29.6 bits (65), Expect = 1.2, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 1 MSTLQELEDESHTWIGSDRDY-----TYEELLSRVFEIMREKNPDMV 42
+S E E TW D Y T +E++ R I+REK+PD++
Sbjct: 160 ISYADENEARVITWKNIDLPYVESVSTEKEMIKRFLRIIREKDPDII 206
>pdb|3FMG|H Chain H, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 221
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 32/67 (47%)
Query: 50 VMRPPQVVRIGTKKTSFANFTEICKTLHRLPKHLLDFLLAELGTSGSVDGNSQLIIKGRF 109
+M+P +V+I K T + + + + + P H L+++ L SGS++ N + K F
Sbjct: 11 LMKPGALVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSINYNEKFKGKATF 70
Query: 110 QQKQIEN 116
N
Sbjct: 71 TADTSSN 77
>pdb|2ZUE|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg) And An Atp Analog
(Anp)
pdb|2ZUF|A Chain A, Crystal Structure Of Pyrococcus Horikoshii Arginyl-Trna
Synthetase Complexed With Trna(Arg)
Length = 629
Score = 28.9 bits (63), Expect = 1.7, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 13 TWIGSDRDYTYEELLSRVFEIMREKNPDM 41
TW+G D +E + R E++ EKNP +
Sbjct: 431 TWVGFTVDEVIQEAVKRARELIEEKNPAL 459
>pdb|3ONQ|A Chain A, Crystal Structure Of Regulator Of Polyketide Synthase
Expression Bad_0249 From Bifidobacterium Adolescentis
pdb|3ONQ|B Chain B, Crystal Structure Of Regulator Of Polyketide Synthase
Expression Bad_0249 From Bifidobacterium Adolescentis
pdb|3ONQ|C Chain C, Crystal Structure Of Regulator Of Polyketide Synthase
Expression Bad_0249 From Bifidobacterium Adolescentis
pdb|3ONQ|D Chain D, Crystal Structure Of Regulator Of Polyketide Synthase
Expression Bad_0249 From Bifidobacterium Adolescentis
Length = 262
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 20 DYTYEELLSRVFEIMREKNPD 40
DY EEL V++++R +NPD
Sbjct: 175 DYAREELYRNVYQVLRGENPD 195
>pdb|4AHC|A Chain A, Crystal Structure Of An Evolved Replicating Dna Polymerase
pdb|4AHC|B Chain B, Crystal Structure Of An Evolved Replicating Dna Polymerase
pdb|4AIL|C Chain C, Crystal Structure Of An Evolved Replicating Dna Polymerase
Length = 775
Score = 28.1 bits (61), Expect = 3.0, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 1 MSTLQELEDESHTWIGSDRDY-----TYEELLSRVFEIMREKNPDMV 42
+S E E + TW D Y + E++ R I+REK+PD++
Sbjct: 160 ISYADENEAKVITWKNIDLPYVEVVSSEREMIKRFLRIIREKDPDII 206
>pdb|2ZCN|A Chain A, Crystal Structure Of Icar, A Repressor Of The Tetr Family
pdb|2ZCN|B Chain B, Crystal Structure Of Icar, A Repressor Of The Tetr Family
pdb|2ZCN|C Chain C, Crystal Structure Of Icar, A Repressor Of The Tetr Family
pdb|2ZCN|D Chain D, Crystal Structure Of Icar, A Repressor Of The Tetr Family
Length = 192
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 82 HLLDFLLAELGTSGSVDGNSQLIIKGRFQQKQIENVLRRYIKEYV 126
+ +DFLL + S+DG Q + K F +V RYIK YV
Sbjct: 65 YFIDFLLRNHDDNYSIDGLYQFLFKFIF------DVDERYIKLYV 103
>pdb|3A2F|A Chain A, Crystal Structure Of Pyrococcus Furiosus Dna
PolymerasePCNA Monomer Mutant Complex
Length = 775
Score = 26.9 bits (58), Expect = 7.7, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 1 MSTLQELEDESHTWIGSDRDY-----TYEELLSRVFEIMREKNPDMV 42
+S E E + TW D Y + E + R I+REK+PD++
Sbjct: 160 ISYADENEAKVITWKNIDLPYVEVVSSEREXIKRFLRIIREKDPDII 206
>pdb|1UIK|A Chain A, Crystal Structure Of Soybean Beta-Conglycinin Alpha Prime
Homotrimer
pdb|1UIK|B Chain B, Crystal Structure Of Soybean Beta-Conglycinin Alpha Prime
Homotrimer
pdb|1UIK|C Chain C, Crystal Structure Of Soybean Beta-Conglycinin Alpha Prime
Homotrimer
Length = 418
Score = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 19 RDYTYEELLSRVFEIMREKNPDM 41
RD Y L ++FEI EKNP +
Sbjct: 224 RDPIYSNKLGKLFEITPEKNPQL 246
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
0.323 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,410,685
Number of Sequences: 62578
Number of extensions: 196490
Number of successful extensions: 647
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 629
Number of HSP's gapped (non-prelim): 20
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)