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= 004893
(724 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DZO|A Chain A, Structure Of Human Mad1 C-Terminal Domain Reveals Its
Involvement In Kinetochore Targeting
pdb|4DZO|B Chain B, Structure Of Human Mad1 C-Terminal Domain Reveals Its
Involvement In Kinetochore Targeting
Length = 123
Score = 63.5 bits (153), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/132 (30%), Positives = 77/132 (58%), Gaps = 15/132 (11%)
Query: 597 SGKITQLKEQIATLEKREERYKTVFADRISVFRRACCELFGYKI-VMDEHQRANGIPVTH 655
S ++ +LK+Q+ + E + +R K VF +I FR+AC L GY+I + E+Q
Sbjct: 3 SKEVAELKKQVESAELKNQRLKEVFQTKIQEFRKACYTLTGYQIDITTENQ--------- 53
Query: 656 FTLQSIYAQGDDEKLEFEYES---SNTNIMVNDYTSQPEISRQVDIFVRKMNSIPAFTAN 712
+ L S+YA+ + L F+ S S ++ +++ + +++ +R+ +SIPAF ++
Sbjct: 54 YRLTSLYAEHPGDCLIFKATSPSGSKXQLLETEFSHT--VGELIEVHLRRQDSIPAFLSS 111
Query: 713 LTVESFNRRTLS 724
LT+E F+R+T++
Sbjct: 112 LTLELFSRQTVA 123
>pdb|1U2R|A Chain A, Crystal Structure Of Adp-Ribosylated Ribosomal Translocase
From Saccharomyces Cerevisiae
pdb|1ZM2|A Chain A, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|C Chain C, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|E Chain E, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM3|A Chain A, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|C Chain C, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|E Chain E, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM4|A Chain A, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|C Chain C, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|E Chain E, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM9|A Chain A, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|C Chain C, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|E Chain E, Structure Of Eef2-Eta In Complex With Pj34
pdb|2P8X|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-Eef2:gdpnp
Cryo-Em Reconstruction
pdb|2P8Y|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdp:sordarin Cryo-Em Reconstruction
pdb|2P8Z|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdpnp:sordarin Cryo-Em Reconstruction
pdb|3B78|A Chain A, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|C Chain C, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|E Chain E, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B82|A Chain A, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|C Chain C, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|E Chain E, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B8H|A Chain A, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|C Chain C, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|E Chain E, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|2ZIT|A Chain A, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|C Chain C, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|E Chain E, Structure Of The Eef2-Exoa-Nad+ Complex
Length = 842
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 8/71 (11%)
Query: 499 SLSEKLNNEERRIKSLERENDRLRSEISLLESKLGHGDFSSENTKVLRMVNTLAVDNEAK 558
SL ++++E+ +K ++++ D I+L++S GH DFSSE T LR+ + V
Sbjct: 76 SLYSEMSDED--VKEIKQKTDGNSFLINLIDSP-GHVDFSSEVTAALRVTDGALV---VV 129
Query: 559 QTIEA--LQTE 567
TIE +QTE
Sbjct: 130 DTIEGVCVQTE 140
>pdb|1N0V|C Chain C, Crystal Structure Of Elongation Factor 2
pdb|1N0V|D Chain D, Crystal Structure Of Elongation Factor 2
pdb|1N0U|A Chain A, Crystal Structure Of Yeast Elongation Factor 2 In Complex
With Sordarin
pdb|1S1H|T Chain T, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i.
pdb|2E1R|A Chain A, Structure Of Eef2 In Complex With A Sordarin Derivative
pdb|2NPF|A Chain A, Structure Of Eef2 In Complex With Moriniafungin
pdb|2NPF|B Chain B, Structure Of Eef2 In Complex With Moriniafungin
pdb|2P8W|T Chain T, Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo-Em
Reconstruction
pdb|3DNY|T Chain T, Fitting Of The Eef2 Crystal Structure Into The Cryo-Em
Density Map Of The Eef2.80s.Alf4-.Gdp Complex
Length = 842
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 8/71 (11%)
Query: 499 SLSEKLNNEERRIKSLERENDRLRSEISLLESKLGHGDFSSENTKVLRMVNTLAVDNEAK 558
SL ++++E+ +K ++++ D I+L++S GH DFSSE T LR+ + V
Sbjct: 76 SLYSEMSDED--VKEIKQKTDGNSFLINLIDSP-GHVDFSSEVTAALRVTDGALV---VV 129
Query: 559 QTIEA--LQTE 567
TIE +QTE
Sbjct: 130 DTIEGVCVQTE 140
>pdb|3BRX|A Chain A, Crystal Structure Of Calcium-Bound Cotton Annexin Gh1
Length = 317
Score = 28.9 bits (63), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 639 KIVMDEHQRANGIPVTHFTLQSIYAQGDDEKL 670
K++ DE+QR N +P+T ++ + GD EKL
Sbjct: 278 KVIADEYQRRNSVPLTRAIVKDTH--GDYEKL 307
>pdb|1GO4|E Chain E, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|F Chain F, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|G Chain G, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20.
pdb|1GO4|H Chain H, Crystal Structure Of Mad1-Mad2 Reveals A Conserved Mad2
Binding Motif In Mad1 And Cdc20
Length = 100
Score = 28.9 bits (63), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 40/74 (54%), Gaps = 8/74 (10%)
Query: 510 RIKSLERENDRLRSEISLLESKLG----HGDFSSENTKVLRM-VNTLAVDNEAKQTIEAL 564
+++ LE E RL E +LE++L GD+ TKVL M +N +V A+Q +
Sbjct: 20 KVEELEGERSRLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSV---ARQRLRED 76
Query: 565 QTELQKTKEKLQAV 578
++LQ E+L+ +
Sbjct: 77 HSQLQAECERLRGL 90
>pdb|1N00|A Chain A, Annexin Gh1 From Cotton
Length = 321
Score = 28.9 bits (63), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 639 KIVMDEHQRANGIPVTHFTLQSIYAQGDDEKL 670
K++ DE+QR N +P+T ++ + GD EKL
Sbjct: 282 KVIADEYQRRNSVPLTRAIVKDTH--GDYEKL 311
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
0.311 0.127 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,026,081
Number of Sequences: 62578
Number of extensions: 619705
Number of successful extensions: 2221
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 2073
Number of HSP's gapped (non-prelim): 155
length of query: 724
length of database: 14,973,337
effective HSP length: 106
effective length of query: 618
effective length of database: 8,340,069
effective search space: 5154162642
effective search space used: 5154162642
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.8 bits)