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= 024241
(270 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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 54/133 (40%), Positives = 82/133 (61%), 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 NRLFFLRCEKCGS 248
+R FL+CE CG+
Sbjct: 121 DRFHFLKCEACGA 133
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 84/146 (57%), Gaps = 10/146 (6%)
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 ILSKENRLFFLRCEKCGSGRSVAPIK 256
+ +E R+ L+CE CG+ AP+K
Sbjct: 114 RIIREGRISLLKCEACGAK---APLK 136
>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 = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 74/139 (53%), Gaps = 5/139 (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 RLFFLRCEKCGSGRSVAPI 255
+ +++ C CG+ V P+
Sbjct: 120 KSWYIVCLACGAQTPVKPL 138
>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 = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 74/139 (53%), Gaps = 5/139 (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 RLFFLRCEKCGSGRSVAPI 255
+ +++ C CG+ V P+
Sbjct: 128 KSWYIVCLACGAQTPVKPL 146
>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 = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 74/139 (53%), Gaps = 5/139 (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 RLFFLRCEKCGSGRSVAPI 255
+ +++ C CG+ V P+
Sbjct: 121 KSWYIVCLACGAQTPVKPL 139
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 48/94 (51%), Gaps = 3/94 (3%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 33 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 92
Query: 216 VNEYVICLGCKSPDTIL--SKENRLFFLRCEKCG 247
+ ++V+C C++P+T L + + + C+ CG
Sbjct: 93 IKKFVLCPECENPETDLHVNPKKQTIGNSCKACG 126
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 48/94 (51%), Gaps = 3/94 (3%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 40 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 99
Query: 216 VNEYVICLGCKSPDTIL--SKENRLFFLRCEKCG 247
+ ++V+C C++P+T L + + + C+ CG
Sbjct: 100 IKKFVLCPECENPETDLHVNPKKQTIGNSCKACG 133
>pdb|1K81|A Chain A, Nmr Structure Of The Zinc-Ribbon Domain Within Translation
Initiation Factor 2 Subunit Beta
Length = 36
Score = 35.8 bits (81), Expect = 0.025, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 221 ICLGCKSPDTILSKENRLFFLRCEKCGSGRSVAPI 255
IC C PDT + KE R+ L+C CG+ R + I
Sbjct: 2 ICRECGKPDTKIIKEGRVHLLKCMACGAIRPIRMI 36
>pdb|1K8B|A Chain A, Nmr Structure Analysis Of The N-Terminal Domain Of
Archaeal Translation Initiation Factor 2 Subunit Beta
Length = 52
Score = 33.9 bits (76), Expect = 0.090, 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 = 30.0 bits (66), Expect = 1.3, 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
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 0.137 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,037,322
Number of Sequences: 62578
Number of extensions: 334173
Number of successful extensions: 645
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: 631
Number of HSP's gapped (non-prelim): 11
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
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: 51 (24.3 bits)