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= psy17621
(448 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 7/128 (5%)
Query: 318 PRVIEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFFISDDELLSILGSSS 377
P ++E + + +E+L D L +K+L +YL +R+AF RF+F+ D++LL I+G+S
Sbjct: 291 PLILEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSK 350
Query: 378 P-TAIQEHIVKMFDNVQSLKMADSESPGVKTISAMISCENEVMDFRTP-QLTFG-EIEQW 434
IQ+H KMF + +L + D ++ TI M S E E + F+ P + G +I +W
Sbjct: 351 DIIKIQKHFRKMFAGLANLTLDDEKT----TIIGMSSAEGETVTFKKPISIANGPKIHEW 406
Query: 435 MTRVLDEM 442
+T V EM
Sbjct: 407 LTMVESEM 414
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 18/27 (66%)
Query: 36 CGEGMDFLAFGKILSGLSQCGAWGCFD 62
C EG D A +I GL QCGAWGCFD
Sbjct: 637 CDEGFDLQAMSRIFVGLCQCGAWGCFD 663
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%)
Query: 155 EMLLQLEDSCMNLQSMAGSAYIGPFLPVVQEWEKRLSVVSEVLYTWIQLQRKWLYLEGV 213
++ +L + ++ +M S Y F W+ RL+ V +L WI +QR+W+YLEG+
Sbjct: 197 DLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGI 255
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 12/114 (10%)
Query: 211 EGVEDELKTVKRWSSDIREMPQCKALEKYLKDFKKSVALFVELKHEALRERHWTELMKKT 270
+ +ED L+ +K + IR+ + +K + K A+ +L EA+++RHW L K+
Sbjct: 66 KSLEDTLQKLKNLPNRIRQYSAFDHAQNLIKIYLKGNAIITDLHSEAIKDRHWKILKKRL 125
Query: 271 GVE---DELKTVKRWSSDI-------REMPQCKALEKYLKDFKKSVALFIMWET 314
EL W SD+ RE+ E L++F K V F W T
Sbjct: 126 NTNWIITELTLGSIWDSDLARNENIYREVITAAQGEIALEEFLKGVREF--WTT 177
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 7/128 (5%)
Query: 318 PRVIEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFFISDDELLSILGSSS 377
P ++E + + +E+L D L +K+L +YL +R+AF RF+F+ D++LL I+G+S
Sbjct: 291 PLILEVLAIERIQQTMERLSDLLGKVQKALGEYLERQRSAFARFYFVGDEDLLEIIGNSK 350
Query: 378 P-TAIQEHIVKMFDNVQSLKMADSESPGVKTISAMISCENEVMDFRTP-QLTFG-EIEQW 434
IQ+H KMF + +L + D ++ TI M S E E + F+ P + G +I +W
Sbjct: 351 DIIKIQKHFRKMFAGLANLTLDDEKT----TIIGMSSAEGETVTFKKPISIANGPKIHEW 406
Query: 435 MTRVLDEM 442
+T V EM
Sbjct: 407 LTMVESEM 414
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 18/27 (66%)
Query: 36 CGEGMDFLAFGKILSGLSQCGAWGCFD 62
C EG D A +I GL QCGAWGCFD
Sbjct: 637 CDEGFDLQAMSRIFVGLCQCGAWGCFD 663
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%)
Query: 155 EMLLQLEDSCMNLQSMAGSAYIGPFLPVVQEWEKRLSVVSEVLYTWIQLQRKWLYLEGV 213
++ +L + ++ +M S Y F W+ RL+ V +L WI +QR+W+YLEG+
Sbjct: 197 DLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWVYLEGI 255
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 12/114 (10%)
Query: 211 EGVEDELKTVKRWSSDIREMPQCKALEKYLKDFKKSVALFVELKHEALRERHWTELMKKT 270
+ +ED L+ +K + IR+ + +K + K A+ +L EA+++RHW L K+
Sbjct: 66 KSLEDTLQKLKNLPNRIRQYSAFDHAQNLIKIYLKGNAIITDLHSEAIKDRHWKILKKRL 125
Query: 271 G---VEDELKTVKRWSSDI-------REMPQCKALEKYLKDFKKSVALFIMWET 314
+ EL W SD+ RE+ E L++F K V F W T
Sbjct: 126 NTNWIITELTLGSIWDSDLARNENIYREVITAAQGEIALEEFLKGVREF--WTT 177
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 56/103 (54%), Gaps = 1/103 (0%)
Query: 321 IEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFFISDDELLSILGSS-SPT 379
IE +PN L+ D L+ + SL +L +R FPRF+F+ +D+LL I+GS
Sbjct: 353 IEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHD 412
Query: 380 AIQEHIVKMFDNVQSLKMADSESPGVKTISAMISCENEVMDFR 422
+ + + KMF +++S+ + GV+++ + NE ++ +
Sbjct: 413 QVSKFMKKMFGSIESIIFLEDFITGVRSVEGEVLNLNEKIELK 455
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 35 NCGEGMDFLAFGKILSGLSQCGAWGCFD 62
NC + D+ ++L G++Q GAWGCFD
Sbjct: 677 NCDDSFDYQVLSRLLVGITQIGAWGCFD 704
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 160 LEDSCMN----LQSMAGSAYIGPFLPVVQEWEKRLSVVSEVLYTWIQLQRKWLYLEGVED 215
LE +C L SM S Y F + E +L+ +SE+ W+++Q WL L G+
Sbjct: 257 LEQACKEDLEELVSMKASNYYKIFEQDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILG 316
Query: 216 E 216
E
Sbjct: 317 E 317
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 56/103 (54%), Gaps = 1/103 (0%)
Query: 321 IEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFFISDDELLSILGSS-SPT 379
IE +PN L+ D L+ + SL +L +R FPRF+F+ +D+LL I+GS
Sbjct: 134 IEVIHIPNFDTTLKLTIDSLKMIKSSLSTFLERQRRQFPRFYFLGNDDLLKIIGSGKHHD 193
Query: 380 AIQEHIVKMFDNVQSLKMADSESPGVKTISAMISCENEVMDFR 422
+ + + KMF +++S+ + GV+++ + NE ++ +
Sbjct: 194 QVSKFMKKMFGSIESIIFFEDFITGVRSVEGEVLNLNEKIELK 236
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 35 NCGEGMDFLAFGKILSGLSQCGAWGCFD 62
NC + D+ ++L G++Q GAWGCFD
Sbjct: 458 NCDDSFDYQVLSRLLVGITQIGAWGCFD 485
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 160 LEDSCMN----LQSMAGSAYIGPFLPVVQEWEKRLSVVSEVLYTWIQLQRKWLYLEGVED 215
LE +C L SM S Y F + E +L+ +SE+ W+++Q WL L G+
Sbjct: 38 LEQACKEDLEELVSMKASNYYKIFEQDCLDLESKLTKLSEIQVNWVEVQFYWLDLYGILG 97
Query: 216 E 216
E
Sbjct: 98 E 98
>pdb|3AFH|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With A Glutamyl-Amp
Analog
Length = 488
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 317 NPRVIEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFF--ISDDELLSI 372
+P I+ ++P + + LK +E +L+D++ K N FP + F + DD L+ I
Sbjct: 155 HPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNFAVVVDDHLMRI 212
>pdb|3AKZ|B Chain B, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|D Chain D, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|C Chain C, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
pdb|3AKZ|A Chain A, Crystal Structure Of Thermotoga Maritima Nondiscriminating
Glutamyl- Trna Synthetase In Complex With Trnagln And A
Glutamyl-Amp Analog
Length = 487
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 317 NPRVIEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFF--ISDDELLSI 372
+P I+ ++P + + LK +E +L+D++ K N FP + F + DD L+ I
Sbjct: 154 HPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNFAVVVDDHLMRI 211
>pdb|3AL0|C Chain C, Crystal Structure Of The Glutamine Transamidosome From
Thermotoga Maritima In The Glutamylation State
Length = 592
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 317 NPRVIEQCLVPNRLEHLEQLKDGLEACEKSLQDYLTDKRNAFPRFFF--ISDDELLSI 372
+P I+ ++P + + LK +E +L+D++ K N FP + F + DD L+ I
Sbjct: 259 HPVTIKFKVLPGKTSFEDLLKGYMEFDNSTLEDFIIMKSNGFPTYNFAVVVDDHLMRI 316
>pdb|2UY1|A Chain A, Crystal Structure Of Cstf-77
Length = 493
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 140 VKKGEDRGFQ--LGDLSEMLLQLEDSCMNLQSMAGSAYIGPFLPVVQEWEKRLSVVSEVL 197
++ G R Q +G LSE+ E+ + L + G +G LP+ Q +R + ++
Sbjct: 108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLI 167
Query: 198 YTW 200
W
Sbjct: 168 RGW 170
>pdb|1WN7|A Chain A, Crystal Structure Of Archaeal Family B Dna Polymerase
Mutant
Length = 774
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 229 EMPQCKALEKYLKDFKKSVALFVELKHEALRERHWTELMKKTGVEDE--------LKTVK 280
E + KA+E +LK + +EL++E ER + KK V DE L+ V+
Sbjct: 554 ETVKKKAME-FLKYINAKLPGALELEYEGFYERGFFVTKKKYAVIDEEGKITTRGLEIVR 612
Query: 281 RWSSDIREMPQCKALEKYLKDFKKSVALFIMWET 314
R S+I + Q + LE LKD A+ I+ E
Sbjct: 613 RDWSEIAKETQARVLEALLKDGDVEKAVRIVKEV 646
>pdb|2UY1|B Chain B, Crystal Structure Of Cstf-77
Length = 493
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 140 VKKGEDRGFQ--LGDLSEMLLQLEDSCMNLQSMAGSAYIGPFLPVVQEWEKRLSVVSEVL 197
++ G R Q +G LSE+ E+ + L + G +G LP+ Q +R + ++
Sbjct: 108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPLFQSSFQRYQQIQPLI 167
Query: 198 YTW 200
W
Sbjct: 168 RGW 170
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
0.320 0.133 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,459,852
Number of Sequences: 62578
Number of extensions: 539028
Number of successful extensions: 1324
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1303
Number of HSP's gapped (non-prelim): 23
length of query: 448
length of database: 14,973,337
effective HSP length: 102
effective length of query: 346
effective length of database: 8,590,381
effective search space: 2972271826
effective search space used: 2972271826
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)