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= 026382
(239 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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 63/106 (59%), Gaps = 5/106 (4%)
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 HVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVSKYFL 221
H++ FLL E+ T+G+L+G +R+V++GRF P L++Y+ +Y +
Sbjct: 62 HLLKFLLREIATAGTLEG-RRVVLQGRFTPYLIANKLKKYIKEYVI 106
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 13 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 67
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVSKY 219
M +LL EL G++D + LV++G+F+ + ++ R++ Y
Sbjct: 68 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAY 110
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 5 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 59
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVSKY 219
M +LL EL G++D + LV++G+F+ + ++ R++ Y
Sbjct: 60 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAY 102
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 52/103 (50%), Gaps = 5/103 (4%)
Query: 117 EYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREGTKKTVFVNFMDLCKTMHRQPDH 176
EY E+L R+++ L E G + T P ++ T+ NF + C + R+
Sbjct: 6 EYVEMLDRLYSKLPEK-----GRKEGTQSLPNMIILNIGNTTIIRNFAEYCDRIRREDKI 60
Query: 177 VMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVSKY 219
M +LL EL G++D + LV++G+F+ + ++ R++ Y
Sbjct: 61 CMKYLLKELAAPGNVDDKGELVIQGKFSSQVINTLMERFLKAY 103
>pdb|1NEE|A Chain A, Structure Of Archaeal Translation Factor Aif2beta From
Methanobacterium Thermoautrophicum
Length = 138
Score = 50.8 bits (120), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 62/111 (55%), Gaps = 7/111 (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 HRQPDHVMTFLLAELGTSGSLDGQQRLVVKGRFAPKNFEGILRRYVSKYFL 221
+R P H++ FLL ELGT+G+L+G R +++G+F + YV+K+ +
Sbjct: 55 NRDPQHLLKFLLRELGTAGNLEG-GRAILQGKFTHFLINERIEDYVNKFVI 104
>pdb|2G2K|A Chain A, Nmr Structure Of An N-Terminal Fragment Of The Eukaryotic
Initiation Factor 5 (Eif5)
Length = 170
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 33 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 92
Query: 216 VSKYFL 221
+ K+ L
Sbjct: 93 IKKFVL 98
>pdb|2E9H|A Chain A, Solution Structure Of The Eif-5_eif-2b Domain From Human
Eukaryotic Translation Initiation Factor 5
Length = 157
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 157 KTVFVNFMDLCKTMHRQPDHVMTFLLAELGTSGSLDGQQ-RLVVKGRFAPKNFEGILRRY 215
KTV VN +D+ K ++R P + + ELG D + R +V G + +L +
Sbjct: 40 KTVIVNMVDVAKALNRPPTYPTKYFGCELGAQTQFDVKNDRYIVNGSHEANKLQDMLDGF 99
Query: 216 VSKYFL 221
+ K+ L
Sbjct: 100 IKKFVL 105
>pdb|1K8B|A Chain A, Nmr Structure Analysis Of The N-Terminal Domain Of
Archaeal Translation Initiation Factor 2 Subunit Beta
Length = 52
Score = 34.7 bits (78), Expect = 0.051, 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 = 30.8 bits (68), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 21/49 (42%)
Query: 106 RYPWEGSDRDYEYEELLGRVFNILRENNPELAGDRRRTVMRPPQVLREG 154
R PW G R E ++ R +++ E P L G R + Q L G
Sbjct: 66 RQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVG 114
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
0.316 0.137 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,111,737
Number of Sequences: 62578
Number of extensions: 291611
Number of successful extensions: 535
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 525
Number of HSP's gapped (non-prelim): 10
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
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)