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= 025050
(258 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 = 97.1 bits (240), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 53/133 (39%), Positives = 80/133 (60%), Gaps = 5/133 (3%)
Query: 116 YEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPD 175
Y+YE+LL + + L EN + + R + V EG K T+ NF D+ ++R P
Sbjct: 6 YDYEKLLEKAYQELPEN---VKHHKSRFEVPGALVTIEGNK-TIIENFKDIADALNRDPQ 61
Query: 176 HVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKE 235
H++ FLL E+ T+G+L+G+ R+V++GRF P L++Y+ EYVIC C SPDT + K
Sbjct: 62 HLLKFLLREIATAGTLEGR-RVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIKR 120
Query: 236 NRLFFLRCEKVKA 248
+R FL+CE A
Sbjct: 121 DRFHFLKCEACGA 133
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 77.8 bits (190), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 49/138 (35%), Positives = 78/138 (56%), Gaps = 7/138 (5%)
Query: 111 GSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTM 170
GS D +YE+LL R + L PE+ +R V + V++ +T NF ++ +
Sbjct: 1 GSHMD-DYEKLLERAIDQL---PPEVFETKRFEVPKAYSVIQ--GNRTFIQNFREVADAL 54
Query: 171 HRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDT 230
+R P H++ FLL ELGT+G+L+G R +++G+F + YVN++VIC C PDT
Sbjct: 55 NRDPQHLLKFLLRELGTAGNLEGG-RAILQGKFTHFLINERIEDYVNKFVICHECNRPDT 113
Query: 231 ILSKENRLFFLRCEKVKA 248
+ +E R+ L+CE A
Sbjct: 114 RIIREGRISLLKCEACGA 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 = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 5 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 59
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
M +LL EL G++D + LV++G+F+ + ++ R++ YV C CKS DTIL KE
Sbjct: 60 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 119
Query: 237 RLFFLRC 243
+ +++ C
Sbjct: 120 KSWYIVC 126
>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 = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 6 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 60
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
M +LL EL G++D + LV++G+F+ + ++ R++ YV C CKS DTIL KE
Sbjct: 61 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 120
Query: 237 RLFFLRC 243
+ +++ C
Sbjct: 121 KSWYIVC 127
>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 = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 68/127 (53%), Gaps = 5/127 (3%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 13 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 67
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVNEYVICLGCKSPDTILSKEN 236
M +LL EL G++D + LV++G+F+ + ++ R++ YV C CKS DTIL KE
Sbjct: 68 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKKEK 127
Query: 237 RLFFLRC 243
+ +++ C
Sbjct: 128 KSWYIVC 134
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 33 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 92
Query: 216 VNEYVICLGCKSPDTIL 232
+ ++V+C C++P+T L
Sbjct: 93 IKKFVLCPECENPETDL 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 = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 40 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 99
Query: 216 VNEYVICLGCKSPDTIL 232
+ ++V+C C++P+T L
Sbjct: 100 IKKFVLCPECENPETDL 116
>pdb|1K8B|A Chain A, Nmr Structure Analysis Of The N-Terminal Domain Of
Archaeal Translation Initiation Factor 2 Subunit Beta
Length = 52
Score = 35.0 bits (79), Expect = 0.044, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 34/53 (64%), Gaps = 2/53 (3%)
Query: 150 VLREGTKKTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQRLVVKGR 202
+L EG + T+ NF +L K ++R + +LL E G++G+L+G RL+++ R
Sbjct: 2 ILIEGNR-TIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLEG-GRLILQRR 52
>pdb|1TE2|A Chain A, Putative Phosphatase Ynic From Escherichia Coli K12
pdb|1TE2|B Chain B, Putative Phosphatase Ynic From Escherichia Coli K12
Length = 226
Score = 30.4 bits (67), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 106 RYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVM 145
R PW G R E ++ R +++ E P L G R +
Sbjct: 66 RQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVAL 105
>pdb|1K81|A Chain A, Nmr Structure Of The Zinc-Ribbon Domain Within Translation
Initiation Factor 2 Subunit Beta
Length = 36
Score = 29.3 bits (64), Expect = 2.4, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 221 ICLGCKSPDTILSKENRLFFLRC 243
IC C PDT + KE R+ L+C
Sbjct: 2 ICRECGKPDTKIIKEGRVHLLKC 24
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
0.317 0.138 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,703,625
Number of Sequences: 62578
Number of extensions: 319855
Number of successful extensions: 659
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 644
Number of HSP's gapped (non-prelim): 12
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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: 50 (23.9 bits)