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= psy12726
(558 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 362 bits (929), Expect = e-100, Method: Compositional matrix adjust.
Identities = 166/213 (77%), Positives = 185/213 (86%)
Query: 2 DSLVVTPISQMAEFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPXXXXXXXX 61
+ L+ +MAEFPLEP L KMLIMSVHL CS+E+LTIVSMLSVQNVFYRP
Sbjct: 36 EGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSMLSVQNVFYRPKDKQALAD 95
Query: 62 XXXXXFNQMEGDHITLLAVYNSWRNNKFSNAWCYENFVQIRTLKRAQDVRKQLLGIMDRH 121
F+Q EGDH+TLLAVYNSW+NNKFSN WCYENF+Q R+L+RAQD+RKQ+LGIMDRH
Sbjct: 96 QKKAKFHQTEGDHLTLLAVYNSWKNNKFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRH 155
Query: 122 KLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVVYIHPSSALFNRQPEWV 181
KLDVVS GK+TVRVQKA+CSGFFRNAAKKDPQEGYRTL+D QVVYIHPSSALFNRQPEWV
Sbjct: 156 KLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQVVYIHPSSALFNRQPEWV 215
Query: 182 IYHELVQTTKEYMREVTSIDPKWLVEFAPAFFK 214
+YHELV TTKEYMREVT+IDP+WLVEFAPAFFK
Sbjct: 216 VYHELVLTTKEYMREVTTIDPRWLVEFAPAFFK 248
Score = 213 bits (541), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 95/106 (89%), Positives = 103/106 (97%)
Query: 330 DVRKQLLGIMDRHKLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVVYIH 389
D+RKQ+LGIMDRHKLDVVS GK+TVRVQKA+CSGFFRNAAKKDPQEGYRTL+D QVVYIH
Sbjct: 143 DIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQVVYIH 202
Query: 390 PSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFK 435
PSSALFNRQPEWV+YHELV TTKEYMREVT+IDP+WLVEFAPAFFK
Sbjct: 203 PSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFK 248
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 93/226 (41%), Positives = 142/226 (62%), Gaps = 11/226 (4%)
Query: 2 DSLVVTPISQMA-EFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPXXXXXXX 60
D +TP+ ++A +FPL+P L+ MLI S QCS E+LTIV+MLSV NVF RP
Sbjct: 506 DEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKRA 565
Query: 61 XXXXXXFNQMEGDHITLLAVYNSWRNNKFS----NAWCYENFVQIRTLKRAQDVRKQLLG 116
F +GDHITLL VY+++++++ + WC ++++ R+L A ++R QL
Sbjct: 566 DDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLER 625
Query: 117 IMDRHKLDVVSAGKNTVR----VQKAVCSGFFRNAAKK-DPQEGYRTLVDSQVVYIHPSS 171
+M+R+ L++ + + + ++KA+ SGFF AKK +GY T+ D+Q V IHPS+
Sbjct: 626 LMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYITVKDNQDVLIHPST 685
Query: 172 ALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSD 217
L EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+
Sbjct: 686 VL-GHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSN 730
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 54/101 (53%), Positives = 74/101 (73%)
Query: 231 EPLQRTNRISFPPGLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVE 290
E +RT GLLKQ VK+RP++K+I+ SATLDA KF YF +AP+ +PGRT+PVE
Sbjct: 216 EAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVE 275
Query: 291 VLYTKEPETDYLDASLITVMQIHLREPPGDVLLFLTGKLDV 331
+ YT E + DYLD+++ TV+QIH E GD+LLFLTG+ ++
Sbjct: 276 LYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEI 316
Score = 93.6 bits (231), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 49/119 (41%), Positives = 76/119 (63%), Gaps = 6/119 (5%)
Query: 325 LTGKLDVRKQLLGIMDRHKLDVVSAGKNTVR----VQKAVCSGFFRNAAKK-DPQEGYRT 379
L+ ++R QL +M+R+ L++ + + + ++KA+ SGFF AKK +GY T
Sbjct: 613 LSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYIT 672
Query: 380 LVDSQVVYIHPSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSD 438
+ D+Q V IHPS+ L EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+
Sbjct: 673 VKDNQDVLIHPSTVL-GHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSN 730
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 40/68 (58%), Positives = 45/68 (66%), Gaps = 11/68 (16%)
Query: 481 RMKSLGPDVPELIILPVYSALPSEMQTRIFEAAP------PGSRKVVIATNIAETSLTID 534
R + GP L + P+Y +LP Q RIFE AP PG RKVVI+TNIAETSLTID
Sbjct: 332 REEGCGP----LSVYPLYGSLPPHQQQRIFEPAPESHNGRPG-RKVVISTNIAETSLTID 386
Query: 535 GIFYVVDP 542
GI YVVDP
Sbjct: 387 GIVYVVDP 394
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 176 bits (445), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 93/226 (41%), Positives = 142/226 (62%), Gaps = 11/226 (4%)
Query: 2 DSLVVTPISQMA-EFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPXXXXXXX 60
D +TP+ ++A +FPL+P L+ MLI S QCS E+LTIV+MLSV NVF RP
Sbjct: 506 DEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKRA 565
Query: 61 XXXXXXFNQMEGDHITLLAVYNSWRNNKFS----NAWCYENFVQIRTLKRAQDVRKQLLG 116
F +GDHITLL VY+++++++ + WC ++++ R+L A ++R QL
Sbjct: 566 DDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLER 625
Query: 117 IMDRHKLDVVSAGKNTVR----VQKAVCSGFFRNAAKK-DPQEGYRTLVDSQVVYIHPSS 171
+M+R+ L++ + + + ++KA+ SGFF AKK +GY T+ D+Q V IHPS+
Sbjct: 626 LMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYITVKDNQDVLIHPST 685
Query: 172 ALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSD 217
L EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+
Sbjct: 686 VL-GHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSN 730
Score = 114 bits (286), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 54/101 (53%), Positives = 74/101 (73%)
Query: 231 EPLQRTNRISFPPGLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVE 290
E +RT GLLKQ VK+RP++K+I+ SATLDA KF YF +AP+ +PGRT+PVE
Sbjct: 216 EAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVE 275
Query: 291 VLYTKEPETDYLDASLITVMQIHLREPPGDVLLFLTGKLDV 331
+ YT E + DYLD+++ TV+QIH E GD+LLFLTG+ ++
Sbjct: 276 LYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEI 316
Score = 93.6 bits (231), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 49/119 (41%), Positives = 76/119 (63%), Gaps = 6/119 (5%)
Query: 325 LTGKLDVRKQLLGIMDRHKLDVVSAGKNTVR----VQKAVCSGFFRNAAKK-DPQEGYRT 379
L+ ++R QL +M+R+ L++ + + + ++KA+ SGFF AKK +GY T
Sbjct: 613 LSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYIT 672
Query: 380 LVDSQVVYIHPSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSD 438
+ D+Q V IHPS+ L EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+
Sbjct: 673 VKDNQDVLIHPSTVL-GHDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSN 730
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 40/68 (58%), Positives = 45/68 (66%), Gaps = 11/68 (16%)
Query: 481 RMKSLGPDVPELIILPVYSALPSEMQTRIFEAAP------PGSRKVVIATNIAETSLTID 534
R + GP L + P+Y +LP Q RIFE AP PG RKVVI+TNIAETSLTID
Sbjct: 332 REEGCGP----LSVYPLYGSLPPHQQQRIFEPAPESHNGRPG-RKVVISTNIAETSLTID 386
Query: 535 GIFYVVDP 542
GI YVVDP
Sbjct: 387 GIVYVVDP 394
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 245 LLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTI 282
+L+ V+ PE+++++ SAT+D F YFF PI +
Sbjct: 198 VLRDVVQAYPEVRIVLXSATIDTSXFCEYFFNCPIIEV 235
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
0.321 0.136 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,780,143
Number of Sequences: 62578
Number of extensions: 627499
Number of successful extensions: 1482
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1457
Number of HSP's gapped (non-prelim): 14
length of query: 558
length of database: 14,973,337
effective HSP length: 104
effective length of query: 454
effective length of database: 8,465,225
effective search space: 3843212150
effective search space used: 3843212150
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)