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= 047170
(89 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 4/70 (5%)
Query: 6 ENVDVVTFLLSEMGTSGSLDGQQHLVVKGRFASKYIEGILHKF----VICGCCKSPDTIL 61
E+ + +LL E+ G++D + LV++G+F+S+ I ++ +F V C CKS DTIL
Sbjct: 56 EDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTIL 115
Query: 62 TNGNHLFFLI 71
++++
Sbjct: 116 KKEKKSWYIV 125
>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 = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 4/70 (5%)
Query: 6 ENVDVVTFLLSEMGTSGSLDGQQHLVVKGRFASKYIEGILHKF----VICGCCKSPDTIL 61
E+ + +LL E+ G++D + LV++G+F+S+ I ++ +F V C CKS DTIL
Sbjct: 57 EDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTIL 116
Query: 62 TNGNHLFFLI 71
++++
Sbjct: 117 KKEKKSWYIV 126
>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 = 48.5 bits (114), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 4/70 (5%)
Query: 6 ENVDVVTFLLSEMGTSGSLDGQQHLVVKGRFASKYIEGILHKF----VICGCCKSPDTIL 61
E+ + +LL E+ G++D + LV++G+F+S+ I ++ +F V C CKS DTIL
Sbjct: 64 EDKICMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTIL 123
Query: 62 TNGNHLFFLI 71
++++
Sbjct: 124 KKEKKSWYIV 133
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 45/74 (60%), Gaps = 7/74 (9%)
Query: 1 MHRQPENVDVVTFLLSEMGTSGSLDGQQHLVVKGRFASKYIEGILHKF----VICGCCKS 56
++R P+++ + FLL E+ T+G+L+G++ +V++GRF I L K+ VIC C S
Sbjct: 56 LNRDPQHL--LKFLLREIATAGTLEGRR-VVLQGRFTPYLIANKLKKYIKEYVICPVCGS 112
Query: 57 PDTILTNGNHLFFL 70
PDT + + FL
Sbjct: 113 PDTKIIKRDRFHFL 126
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 43/63 (68%), Gaps = 7/63 (11%)
Query: 1 MHRQPENVDVVTFLLSEMGTSGSLDGQQHLVVKGRFA----SKYIEGILHKFVICGCCKS 56
++R P+++ + FLL E+GT+G+L+G + +++G+F ++ IE ++KFVIC C
Sbjct: 54 LNRDPQHL--LKFLLRELGTAGNLEGGR-AILQGKFTHFLINERIEDYVNKFVICHECNR 110
Query: 57 PDT 59
PDT
Sbjct: 111 PDT 113
>pdb|3LNU|A Chain A, Crystal Structure Of Pare Subunit
pdb|3LPS|A Chain A, Crystal Structure Of Pare
Length = 408
Score = 30.0 bits (66), Expect = 0.37, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 5 PENV-DVVTFLLSEMGTSGSLDGQQHLVVKGRFASKYIEGILH 46
PE+V D VTF+LS T GQ + R A+ +IEG H
Sbjct: 327 PEDVWDRVTFVLSLKMTDPQFSGQTKERLSSRQAAGFIEGAAH 369
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 17 EMGTSGSLD--GQQHLVVKGRFASK---YIEGILHKFVICGCCKSPDTIL 61
E+G D +++V A+K ++G + KFV+C C++P+T L
Sbjct: 60 ELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDL 109
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 17 EMGTSGSLD--GQQHLVVKGRFASK---YIEGILHKFVICGCCKSPDTIL 61
E+G D +++V A+K ++G + KFV+C C++P+T L
Sbjct: 67 ELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDL 116
>pdb|3LRV|A Chain A, The Prp19 Wd40 Domain Contains A Conserved Protein
Interaction Region Essential For Its Function
Length = 343
Score = 25.4 bits (54), Expect = 7.5, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 25 DGQQHLVVKGRFASKYIEGILHKFVICGCCKSPDTIL 61
D Q++V + +Y G+LHK + SPD IL
Sbjct: 158 DDSQYIVHSAKSDVEYSSGVLHKDSLLLALYSPDGIL 194
>pdb|3KLL|A Chain A, Crystal Structure Of Lactobacillus Reuteri N-Terminally
Truncated Glucansucrase Gtf180-Maltose Complex
Length = 1039
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 20 TSGSLDGQQHLVVKGRFASKYIEGILHKFVICGCCKSPD 58
T+ +LDGQQ+ V+G +A+ + G L +V G D
Sbjct: 602 TNTNLDGQQYTAVRG-YANPDVTGYLAVWVPAGAADDQD 639
>pdb|3KLK|A Chain A, Crystal Structure Of Lactobacillus Reuteri N-Terminally
Truncated Glucansucrase Gtf180 In Triclinic Apo- Form
Length = 1039
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 20 TSGSLDGQQHLVVKGRFASKYIEGILHKFVICGCCKSPD 58
T+ +LDGQQ+ V+G +A+ + G L +V G D
Sbjct: 602 TNTNLDGQQYTAVRG-YANPDVTGYLAVWVPAGAADDQD 639
>pdb|3HZ3|A Chain A, Lactobacillus Reuteri N-Terminally Truncated Glucansucrase
Gtf180(D1025n)-Sucrose Complex
Length = 1039
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 20 TSGSLDGQQHLVVKGRFASKYIEGILHKFVICGCCKSPD 58
T+ +LDGQQ+ V+G +A+ + G L +V G D
Sbjct: 602 TNTNLDGQQYTAVRG-YANPDVTGYLAVWVPAGAADDQD 639
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
0.328 0.144 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,680,552
Number of Sequences: 62578
Number of extensions: 93595
Number of successful extensions: 171
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 157
Number of HSP's gapped (non-prelim): 13
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)