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= psy2429
(108 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B64|A Chain A, Solution Structure Of The Guanine Nucleotide Exchange
Factor Domain From Human Elongation Factor-One Beta,
Nmr, 20 Structures
Length = 91
Score = 108 bits (271), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 51/79 (64%), Positives = 63/79 (79%)
Query: 20 LIAKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVED 79
L+AKS+I+LDVKPW D+TDM ++E+ VR+IQ DGL+WG+SKL P+ YGI KLQI CVVED
Sbjct: 2 LVAKSSILLDVKPWDDETDMAKLEECVRSIQADGLVWGSSKLVPVGYGIKKLQIQCVVED 61
Query: 80 DLVSVDALQESIQDIEDYV 98
D V D L+E I EDYV
Sbjct: 62 DKVGTDMLEEQITAFEDYV 80
>pdb|1F60|B Chain B, Crystal Structure Of The Yeast Elongation Factor Complex
Eef1a:eef1ba
pdb|1G7C|B Chain B, Yeast Eef1a:eef1ba In Complex With Gdpnp
Length = 94
Score = 98.6 bits (244), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 45/77 (58%), Positives = 62/77 (80%)
Query: 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL 81
AKS + LDVKPW D+T+++EM V+AI+M+GL WGA + P+ +GI KLQI+CVVEDD
Sbjct: 7 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 66
Query: 82 VSVDALQESIQDIEDYV 98
VS+D LQ+SI++ ED+V
Sbjct: 67 VSLDDLQQSIEEDEDHV 83
>pdb|2B7B|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha
K205a Mutant In Complex With Eef1a And Gdp
pdb|2B7C|B Chain B, Yeast Guanine Nucleotide Exchange Factor Eef1balpha
K205a Mutant In Complex With Eef1a
Length = 94
Score = 98.2 bits (243), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 45/77 (58%), Positives = 62/77 (80%)
Query: 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL 81
AKS + LDVKPW D+T+++EM V+AI+M+GL WGA + P+ +GI KLQI+CVVEDD
Sbjct: 7 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 66
Query: 82 VSVDALQESIQDIEDYV 98
VS+D LQ+SI++ ED+V
Sbjct: 67 VSLDDLQQSIEEDEDHV 83
>pdb|1IJE|B Chain B, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
Complex
pdb|1IJF|B Chain B, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba
Complex
Length = 90
Score = 98.2 bits (243), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 45/77 (58%), Positives = 62/77 (80%)
Query: 22 AKSNIILDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDL 81
AKS + LDVKPW D+T+++EM V+AI+M+GL WGA + P+ +GI KLQI+CVVEDD
Sbjct: 3 AKSIVTLDVKPWDDETNLEEMVANVKAIEMEGLTWGAHQFIPIGFGIKKLQINCVVEDDK 62
Query: 82 VSVDALQESIQDIEDYV 98
VS+D LQ+SI++ ED+V
Sbjct: 63 VSLDDLQQSIEEDEDHV 79
>pdb|2EDI|A Chain A, Solution Structure Of The Uq_con Domain From Human Nedd8-
Conjugating Enzyme Nce2
Length = 173
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 46 VRAIQMDGLLWGASK-LAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101
+R +DG W ++ L + +G+N L + DD ++++A + ++D ED+ + V
Sbjct: 102 LREHSIDGTGWAPTRTLKDVVWGLNSLFTDLLNFDDPLNIEAAEHHLRDKEDFRNKV 158
>pdb|3FN1|B Chain B, E2-Ring Expansion Of The Nedd8 Cascade Confers Specificity
To Cullin Modification
Length = 167
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 46 VRAIQMDGLLWGASK-LAPLAYGINKLQISCVVEDDLVSVDALQESIQDIEDYVSLV 101
+R +DG W ++ L + +G+N L + DD ++++A + ++D ED+ + V
Sbjct: 102 LREHSIDGTGWAPTRTLKDVVWGLNSLFTDLLNFDDPLNIEAAEHHLRDKEDFRNKV 158
>pdb|1GH8|A Chain A, Solution Structure Of The Archaeal Translation
Elongation Factor 1beta From Methanobacterium
Thermoautotrophicum
Length = 89
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 34/68 (50%)
Query: 28 LDVKPWGDDTDMKEMEKQVRAIQMDGLLWGASKLAPLAYGINKLQISCVVEDDLVSVDAL 87
+ V P D D++ ++K+++ +G P+A+G+ L + VV D +A
Sbjct: 8 IKVMPESPDVDLEALKKEIQERIPEGTELHKIDEEPIAFGLVALNVMVVVGDAEGGTEAA 67
Query: 88 QESIQDIE 95
+ES+ IE
Sbjct: 68 EESLSGIE 75
>pdb|3DEC|A Chain A, Crystal Structure Of A Glycosyl Hydrolases Family 2
Protein From Bacteroides Thetaiotaomicron
Length = 1000
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 4 PYTYKLFLLPSHVEPALIAKSNIILDVKPWGDDTDMKE 41
P+ ++ + +++ LI K N+ + VK W D +D+ E
Sbjct: 604 PHLLEVKKIYQNIKSTLIDKKNLTVRVKNWFDFSDLNE 641
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
0.319 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,984,791
Number of Sequences: 62578
Number of extensions: 102091
Number of successful extensions: 175
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 9
length of query: 108
length of database: 14,973,337
effective HSP length: 72
effective length of query: 36
effective length of database: 10,467,721
effective search space: 376837956
effective search space used: 376837956
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)