BLAST Search Results

BLASTP 2.2.1 [Apr-13-2001] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 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. Query= gi|15646162|ref|NP_208346.1| translation elongation factor EF-Ts (tsf) [Helicobacter pylori 26695] (355 letters) Database: /var/www/html/HP/blast_new/blast/db/pdbaa 13,198 sequences; 2,899,336 total letters Searching...........................done



                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

pdb|1EFU|B  Chain B, Elongation Factor Complex Ef-TuEF-Ts Fr...   183  3e-47
pdb|1AIP|C  Chain C, Ef-Tu Ef-Ts Complex From Thermus Thermo...    93  5e-20
pdb|1TFE|    Dimerization Domain Of Ef-Ts From T. Thermophilus     56  7e-09
pdb|1C8B|A  Chain A, Crystal Structure Of A Novel Germinatio...    29  0.93

>pdb|1EFU|B Chain B, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
 pdb|1EFU|D Chain D, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
          Length = 282

 Score =  183 bits (464), Expect = 3e-47
 Identities = 129/352 (36%), Positives = 193/352 (54%), Gaps = 74/352 (21%)

Query: 4   ISAQLVKKLRDLTDAGMMDCKKALVEVAGDLQKAIDFLREKGLSKAAKKADRIAAEGVVA 63
           I+A LVK+LR+ T AGMMDCKKAL E  GD++ AI+ +R+ G  KAAKKA  +AA+GV+ 
Sbjct: 3   ITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADGVIK 62

Query: 64  LEVAPDFKSAMIVEINSETDFVAKNEGFKELVKKTLETIKAHNIHTTEELLKSPLDNKPF 123
            ++  D    +I+E+N +TDFVAK+ GF+    K L+   A  I T  E+LK+      F
Sbjct: 63  TKI--DGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKI-TDVEVLKA-----QF 114

Query: 124 EEYLHSQIAVIGENILVRKIAHLKAPSSHIINGYAHSNARVGVLIGIKYDNEKNAPKVVE 183
           EE   + +A IGENI +R++A L+     ++  Y H  AR+GVL+  K  +E       E
Sbjct: 115 EEERVALVAKIGENINIRRVAALE---GDVLGSYQH-GARIGVLVAAKGADE-------E 163

Query: 184 LARNIAMHAAAMKPQVLDCKDFSLDFVKKETLALIAEIEKDNEEAKRLGKPLKNIPTFGS 243
           L ++IAMH AA KP+ +  +D S + V+KE                              
Sbjct: 164 LVKHIAMHVAASKPEFIKPEDVSAEVVEKE-----------------------------Y 194

Query: 244 RIELSDEVLAHQKKAFEDELKAQGKPEKIWDKIVPGKMERFIADNTLIDQRLTLLGQFYV 303
           +++L             D     GKP++I +K+V G+M++F  +       ++L GQ +V
Sbjct: 195 QVQL-------------DIAMQSGKPKEIAEKMVEGRMKKFTGE-------VSLTGQPFV 234

Query: 304 MDDKKTIAQVVADCSKEWNDDLKITEYVRFELGEGIEKKAENFAEEVALQMK 355
           M+  KT+ Q++    KE N   ++T ++RFE+GEGIEK   +FA EVA   K
Sbjct: 235 MEPSKTVGQLL----KEHN--AEVTGFIRFEVGEGIEKVETDFAAEVAAMSK 280

>pdb|1AIP|C Chain C, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
 pdb|1AIP|G Chain G, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
 pdb|1AIP|H Chain H, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
 pdb|1AIP|D Chain D, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
          Length = 196

 Score = 92.8 bits (229), Expect = 5e-20
 Identities = 46/90 (51%), Positives = 64/90 (71%)

Query: 7  QLVKKLRDLTDAGMMDCKKALVEVAGDLQKAIDFLREKGLSKAAKKADRIAAEGVVALEV 66
          +L+KKLR+ T AGMMD K+AL +   D +KA+  LRE+G  KAAKKADR A EG++   +
Sbjct: 5  ELIKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREGIIGHYI 64

Query: 67 APDFKSAMIVEINSETDFVAKNEGFKELVK 96
            + +  ++VE+N ETDFVA+NE F+ L K
Sbjct: 65 HHNQRVGVLVELNCETDFVARNELFQNLAK 94

 Score = 55.8 bits (133), Expect = 7e-09
 Identities = 41/186 (22%), Positives = 80/186 (42%), Gaps = 51/186 (27%)

Query: 153 IINGYAHSNARVGVLIGIKYDNEKNAPKVV--ELARNIAMHAAAMKPQVLDCKDFSLDFV 210
           II  Y H N RVGVL+ +  + +  A   +   LA+++AMH A M P+ +  +       
Sbjct: 59  IIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAE------- 111

Query: 211 KKETLALIAEIEKDNEEAKRLGKPLKNIPTFGSRIELSDEVLAHQKKAFEDELKAQGKPE 270
                                              E+  E L  +++ +      +GKP+
Sbjct: 112 -----------------------------------EIPAEELEKERQIYIQAALNEGKPQ 136

Query: 271 KIWDKIVPGKMERFIADNTLIDQRLTLLGQFYVMDDKKTIAQVVADCSKEWNDDLKITEY 330
           +I +KI  G++++++       + + LL Q +V DDK  + +++     +  +++ +  +
Sbjct: 137 QIAEKIAEGRLKKYL-------EEVVLLEQPFVKDDKVKVKELIQQAIAKIGENIVVRRF 189

Query: 331 VRFELG 336
            RFELG
Sbjct: 190 CRFELG 195

>pdb|1TFE|   Dimerization Domain Of Ef-Ts From T. Thermophilus
          Length = 145

 Score = 55.8 bits (133), Expect = 7e-09
 Identities = 41/186 (22%), Positives = 80/186 (42%), Gaps = 51/186 (27%)

Query: 153 IINGYAHSNARVGVLIGIKYDNEKNAPKVV--ELARNIAMHAAAMKPQVLDCKDFSLDFV 210
           II  Y H N RVGVL+ +  + +  A   +   LA+++AMH A M P+ +  +       
Sbjct: 5   IIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAE------- 57

Query: 211 KKETLALIAEIEKDNEEAKRLGKPLKNIPTFGSRIELSDEVLAHQKKAFEDELKAQGKPE 270
                                              E+  E L  +++ +      +GKP+
Sbjct: 58  -----------------------------------EIPAEELEKERQIYIQAALNEGKPQ 82

Query: 271 KIWDKIVPGKMERFIADNTLIDQRLTLLGQFYVMDDKKTIAQVVADCSKEWNDDLKITEY 330
           +I +KI  G++++++       + + LL Q +V DDK  + +++     +  +++ +  +
Sbjct: 83  QIAEKIAEGRLKKYL-------EEVVLLEQPFVKDDKVKVKELIQQAIAKIGENIVVRRF 135

Query: 331 VRFELG 336
            RFELG
Sbjct: 136 CRFELG 141

 Score = 37.7 bits (86), Expect = 0.002
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 57 AAEGVVALEVAPDFKSAMIVEINSETDFVAKNEGFKELVK 96
          A EG++   +  + +  ++VE+N ETDFVA+NE F+ L K
Sbjct: 1  AREGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAK 40

>pdb|1C8B|A Chain A, Crystal Structure Of A Novel Germination Protease From
           Spores Of Bacillus Megaterium: Structural Rearrangements
           And Zymogen Activation
 pdb|1C8B|B Chain B, Crystal Structure Of A Novel Germination Protease From
           Spores Of Bacillus Megaterium: Structural Rearrangements
           And Zymogen Activation
          Length = 371

 Score = 28.9 bits (63), Expect = 0.93
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 9/77 (11%)

Query: 238 IPTFGSRIELSDEVLAHQKKAFEDELKAQGKPEKIWDKIVPGKM----ERFIADNTL--I 291
           IPT    + ++ + +    K F  E+K QGKP K    ++P  M    ++ + ++ L   
Sbjct: 242 IPTVVDAVSITSDTIDFILKHFGREMKEQGKPSK---SLLPSGMTFGEKKKLTEDDLPNE 298

Query: 292 DQRLTLLGQFYVMDDKK 308
           +QR T LG    + D++
Sbjct: 299 EQRQTYLGMIGTLPDEE 315

  Database: /var/www/html/HP/blast_new/blast/db/pdbaa
    Posted date:  Dec 20, 2002 11:08 AM
  Number of letters in database: 2,899,336
  Number of sequences in database:  13,198
  
Lambda     K      H
   0.315    0.133    0.364 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,917,575
Number of Sequences: 13198
Number of extensions: 78440
Number of successful extensions: 202
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 182
Number of HSP's gapped (non-prelim): 11
length of query: 355
length of database: 2,899,336
effective HSP length: 89
effective length of query: 266
effective length of database: 1,724,714
effective search space: 458773924
effective search space used: 458773924
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: 55 (25.8 bits)