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= psy2046
(138 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 129 bits (323), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 67/121 (55%), Positives = 85/121 (70%), Gaps = 1/121 (0%)
Query: 18 LVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSS 77
L++ SGK+ LD++L LKK+GHRVLIFSQ + +LDILG Y+ I+G RLDG +
Sbjct: 551 LIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQ 610
Query: 78 RQELIDEYNR-DQDLFAFLLSTKAGGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVG 136
R+ ID +N D + F FLLST+AGGLGINL ADTV+I D D+NP D QA R HR+G
Sbjct: 611 RRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIG 670
Query: 137 Q 137
Q
Sbjct: 671 Q 671
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 67/118 (56%), Gaps = 2/118 (1%)
Query: 22 SGKLKKLDEILPDLKKN-GHRVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSSRQE 80
SGK+ LD IL + +V++ S + LD+ R + ++RLDG + R +
Sbjct: 398 SGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAK 457
Query: 81 LIDEYNRDQDL-FAFLLSTKAGGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQ 137
+++ +N F F+LS+KAGG G+NL A+ +++ D D+NP ND+QA R R GQ
Sbjct: 458 IVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQ 515
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 70.1 bits (170), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 78/144 (54%), Gaps = 10/144 (6%)
Query: 1 MALKQTLD-CAKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYM 59
+ LKQ +D A K + V SGK+ + EI+ + G ++ IF+QF+ + I+ + +
Sbjct: 73 LKLKQIVDHPALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNII 132
Query: 60 DIRGWRHLR-----LDGATQVSSRQELIDEYNRDQDLFAFLLSTKAGGLGINLTAADTVI 114
+ + L L G R ++I ++ + + +LS KAGG GINLT+A+ VI
Sbjct: 133 E----KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVI 188
Query: 115 IHDVDFNPYNDKQAEDRCHRVGQT 138
D +NP + QA DR +R+GQT
Sbjct: 189 HFDRWWNPAVEDQATDRVYRIGQT 212
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 69.7 bits (169), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 78/144 (54%), Gaps = 10/144 (6%)
Query: 1 MALKQTLD-CAKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYM 59
+ LKQ +D A K + V SGK+ + EI+ + G ++ IF+QF+ + I+ + +
Sbjct: 302 LKLKQIVDHPALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNII 361
Query: 60 DIRGWRHLR-----LDGATQVSSRQELIDEYNRDQDLFAFLLSTKAGGLGINLTAADTVI 114
+ + L L G R ++I ++ + + +LS KAGG GINLT+A+ VI
Sbjct: 362 E----KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVI 417
Query: 115 IHDVDFNPYNDKQAEDRCHRVGQT 138
D +NP + QA DR +R+GQT
Sbjct: 418 HFDRWWNPAVEDQATDRVYRIGQT 441
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 68.6 bits (166), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 48/144 (33%), Positives = 76/144 (52%), Gaps = 10/144 (6%)
Query: 1 MALKQTLD-CAKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYM 59
+ LKQ +D A K + V SGK + EI+ + G ++ IF+QF+ I+ + +
Sbjct: 302 LKLKQIVDHPALLKGGEQSVRRSGKXIRTXEIIEEALDEGDKIAIFTQFVDXGKIIRNII 361
Query: 60 DIRGWRHLR-----LDGATQVSSRQELIDEYNRDQDLFAFLLSTKAGGLGINLTAADTVI 114
+ + L L G R ++I ++ + + +LS KAGG GINLT+A+ VI
Sbjct: 362 E----KELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVI 417
Query: 115 IHDVDFNPYNDKQAEDRCHRVGQT 138
D +NP + QA DR +R+GQT
Sbjct: 418 HFDRWWNPAVEDQATDRVYRIGQT 441
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Query: 41 RVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+ +IF L + G + L G V R +I+ + ++ L++T
Sbjct: 268 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE--KVLVTTNV 325
Query: 101 GGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQT 138
GI++ VI D+ + + E HR+G+T
Sbjct: 326 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 363
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Query: 41 RVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+ +IF L + G + L G V R +I+ + ++ L++T
Sbjct: 284 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE--KVLVTTNV 341
Query: 101 GGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQT 138
GI++ VI D+ + + E HR+G+T
Sbjct: 342 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 379
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Query: 41 RVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+ +IF L + G + L G V R +I+ + ++ L++T
Sbjct: 305 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE--KVLVTTNV 362
Query: 101 GGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQT 138
GI++ VI D+ + + E HR+G+T
Sbjct: 363 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 400
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Query: 41 RVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+ +IF L + G + L G V R +I+ + ++ L++T
Sbjct: 335 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE--KVLVTTNV 392
Query: 101 GGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQT 138
GI++ VI D+ + + E HR+G+T
Sbjct: 393 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 430
>pdb|1YBW|A Chain A, Protease Domain Of Hgfa With No Inhibitor
pdb|1YBW|B Chain B, Protease Domain Of Hgfa With No Inhibitor
pdb|1YC0|A Chain A, Short Form Hgfa With First Kunitz Domain From Hai-1
pdb|2R0K|A Chain A, Protease Domain Of Hgfa With Inhibitor Fab58
Length = 283
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 29 DEILPDLKKNGHRVLIFSQFIFVLDI--------LGHYMDIRGWRHLRLDGATQVSSRQE 80
D +L LKK G R SQF+ + + GH I GW HL + + SS +E
Sbjct: 125 DLVLIRLKKKGDRCATRSQFVQPICLPEPGSTFPAGHKCQIAGWGHLDENVSGYSSSLRE 184
Query: 81 LI 82
+
Sbjct: 185 AL 186
>pdb|2WUB|A Chain A, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUB|C Chain C, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUC|A Chain A, Crystal Structure Of Hgfa In Complex With The Allosteric
Non- Inhibitory Antibody Fab40.Deltatrp And
Ac-Kqlr-Chloromethylketone
pdb|3K2U|A Chain A, Crystal Structure Of Hgfa In Complex With The Allosteric
Inhibitory Antibody Fab40
Length = 257
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 29 DEILPDLKKNGHRVLIFSQFIFVLDI--------LGHYMDIRGWRHLRLDGATQVSSRQE 80
D +L LKK G R SQF+ + + GH I GW HL + + SS +E
Sbjct: 90 DLVLIRLKKKGDRCATRSQFVQPICLPEPGSTFPAGHKCQIAGWGHLDENVSGYSSSLRE 149
Query: 81 LI 82
+
Sbjct: 150 AL 151
>pdb|2R0L|A Chain A, Short Form Hgfa With Inhibitory Fab75
Length = 248
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 29 DEILPDLKKNGHRVLIFSQFIFVLDI--------LGHYMDIRGWRHLRLDGATQVSSRQE 80
D +L LKK G R SQF+ + + GH I GW HL + + SS +E
Sbjct: 90 DLVLIRLKKKGDRCATRSQFVQPICLPEPGSTFPAGHKCQIAGWGHLDENVSGYSSSLRE 149
Query: 81 LI 82
+
Sbjct: 150 AL 151
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 59 MDIRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKAGGLGINLT 108
++IRG + G+ ++ ++N D L++T A G+G+NL+
Sbjct: 340 IEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNLS 389
>pdb|2PBG|A Chain A, 6-Phospho-Beta-D-Galactosidase Form-B
Length = 468
Score = 26.6 bits (57), Expect = 4.8, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 18/85 (21%)
Query: 43 LIFSQFIFVLDILGHYMD--IRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+I ++FI LGHY D + G H+ + ++ R E + +DL F
Sbjct: 240 IIHNKFILDATYLGHYCDKTMEGVNHILAENGGELDLRDEDFQALDAAKDLNDF------ 293
Query: 101 GGLGINLTAAD--------TVIIHD 117
LGIN +D T IIH+
Sbjct: 294 --LGINYYMSDWMQAFDGETEIIHN 316
>pdb|4PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-Cst
pdb|4PBG|B Chain B, 6-Phospho-Beta-Galactosidase Form-Cst
Length = 468
Score = 26.6 bits (57), Expect = 4.9, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 18/85 (21%)
Query: 43 LIFSQFIFVLDILGHYMD--IRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+I ++FI LGHY D + G H+ + ++ R E + +DL F
Sbjct: 240 IIHNKFILDATYLGHYSDKTMEGVNHILAENGGELDLRDEDFQALDAAKDLNDF------ 293
Query: 101 GGLGINLTAAD--------TVIIHD 117
LGIN +D T IIH+
Sbjct: 294 --LGINYYMSDWMQAFDGETEIIHN 316
>pdb|1PBG|A Chain A, The Three-Dimensional Structure Of 6-Phospho-Beta
Galactosidase From Lactococcus Lactis
pdb|1PBG|B Chain B, The Three-Dimensional Structure Of 6-Phospho-Beta
Galactosidase From Lactococcus Lactis
pdb|3PBG|A Chain A, 6-Phospho-Beta-Galactosidase Form-C
pdb|3PBG|B Chain B, 6-Phospho-Beta-Galactosidase Form-C
Length = 468
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 18/85 (21%)
Query: 43 LIFSQFIFVLDILGHYMD--IRGWRHLRLDGATQVSSRQELIDEYNRDQDLFAFLLSTKA 100
+I ++FI LGHY D + G H+ + ++ R E + +DL F
Sbjct: 240 IIHNKFILDATYLGHYSDKTMEGVNHILAENGGELDLRDEDFQALDAAKDLNDF------ 293
Query: 101 GGLGINLTAAD--------TVIIHD 117
LGIN +D T IIH+
Sbjct: 294 --LGINYYMSDWMQAFDGETEIIHN 316
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 95 LLSTKAGGLGINLTAADTVIIHDVDFNPYNDKQAEDRCHRVGQT 138
LL ++ G G N A + D+ FNP +Q R R+GQ
Sbjct: 560 LLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQA 603
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSE|4 Chain 4, Improved Model Of Plant Photosystem I
pdb|2WSF|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 251
Score = 26.2 bits (56), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 46 SQFIFVLD-ILGHYMDIRGWRHLRLDGATQ 74
S +FV++ IL HY++IR W+ ++ G+
Sbjct: 138 SSTLFVIEFILSHYVEIRRWQDIKNPGSVN 167
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At
3.4 Angstrom Resolution
Length = 165
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 46 SQFIFVLD-ILGHYMDIRGWRHLRLDGAT 73
S +FV++ IL HY++IR W+ ++ G+
Sbjct: 54 SSTLFVIEFILSHYVEIRRWQDIKNPGSV 82
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I
Length = 166
Score = 25.8 bits (55), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 46 SQFIFVLD-ILGHYMDIRGWRHLRLDGAT 73
S +FV++ IL HY++IR W+ ++ G+
Sbjct: 58 SSTLFVIEFILSHYVEIRRWQDIKNPGSV 86
>pdb|2QV5|A Chain A, Crystal Structure Of Uncharacterized Protein Atu2773 From
Agrobacterium Tumefaciens C58
pdb|2QV5|B Chain B, Crystal Structure Of Uncharacterized Protein Atu2773 From
Agrobacterium Tumefaciens C58
Length = 261
Score = 25.8 bits (55), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 31/64 (48%)
Query: 16 DDLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQV 75
D V E+ L+KLD++ ++NG + + S F + + + G R + + G + +
Sbjct: 188 DGEVTEASILRKLDDLERIARRNGQAIGVASAFDESIAAISKWSREAGGRGIEIVGVSAL 247
Query: 76 SSRQ 79
S Q
Sbjct: 248 VSGQ 251
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
0.323 0.141 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,131,253
Number of Sequences: 62578
Number of extensions: 157007
Number of successful extensions: 500
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 484
Number of HSP's gapped (non-prelim): 25
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)