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= psy2050
(131 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 = 67.8 bits (164), Expect = 2e-12, Method: Composition-based stats.
Identities = 31/65 (47%), Positives = 47/65 (72%), Gaps = 2/65 (3%)
Query: 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70
+L +QL G+NW+A + ++ GILADEMGLGKT+Q ++F+++L A R PH+I+V
Sbjct: 236 ELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFA--RRQNGPHIIVV 293
Query: 71 PSSTL 75
P ST+
Sbjct: 294 PLSTM 298
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 45.8 bits (107), Expect = 6e-06, Method: Composition-based stats.
Identities = 28/73 (38%), Positives = 38/73 (52%), Gaps = 6/73 (8%)
Query: 3 YELKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRP 62
Y +KA L YQ+ G +W+ M+ LAD+MGLGKT+Q I A +A
Sbjct: 32 YNIKA---NLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTI---AVFSDAKKENE 85
Query: 63 KSPHLIIVPSSTL 75
+P L+I P S L
Sbjct: 86 LTPSLVICPLSVL 98
>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 = 39.7 bits (91), Expect = 5e-04, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 35/73 (47%), Gaps = 6/73 (8%)
Query: 3 YELKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRP 62
Y +KA L YQ+ G +W + LAD+ GLGKT+Q I A +A
Sbjct: 32 YNIKA---NLRPYQIKGFSWXRFXNKLGFGICLADDXGLGKTLQTI---AVFSDAKKENE 85
Query: 63 KSPHLIIVPSSTL 75
+P L+I P S L
Sbjct: 86 LTPSLVICPLSVL 98
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 34 ILADEMGLGKTIQVISFL-AYLHEAGLSRPKSPHLIIVPSSTLCK--YKVPSRW 84
I+ADEMGLGKT+Q I+ + L ++ +P+ +I+V S+L + Y +W
Sbjct: 83 IMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKW 136
>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 = 32.0 bits (71), Expect = 0.11, Method: Composition-based stats.
Identities = 19/40 (47%), Positives = 24/40 (60%), Gaps = 3/40 (7%)
Query: 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73
+LADE+GLGKTI+ LH+ LS LIIVP +
Sbjct: 174 LLADEVGLGKTIEAGXI---LHQQLLSGAAERVLIIVPET 210
>pdb|1JMX|B Chain B, Crystal Structure Of A Quinohemoprotein Amine
Dehydrogenase From Pseudomonas Putida
pdb|1JMZ|B Chain B, Crystal Structure Of A Quinohemoprotein Amine
Dehydrogenase From Pseudomonas Putida With Inhibitor
Length = 349
Score = 30.0 bits (66), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 31 LCGILADEMGLGKT-IQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSR--WRTS 87
L G L+ ++ GKT Q + L L+ GL PK P+ I + L KY + R + +
Sbjct: 232 LYGYLSVDLKTGKTHTQEFADLTELYFTGLRSPKDPNQIYGVLNRLAKYDLKQRKLIKAA 291
Query: 88 NCDKT 92
N D T
Sbjct: 292 NLDHT 296
>pdb|2VTY|A Chain A, Vaccinia Virus Anti-Apoptotic F1l Is A Novel Bcl-2-Like
Domain Swapped Dimer
Length = 182
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 28 NQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77
N ++ I+ D GLG + ISF+ L ++ K+ + + S T+C
Sbjct: 122 NNEVNTIMLDNKGLGVRLATISFITELGRRCMNPVKTIKMFTLLSHTICD 171
>pdb|1WZO|A Chain A, Crystal Structure Of The Hpce From Thermus Thermophilus
Hb8
pdb|1WZO|B Chain B, Crystal Structure Of The Hpce From Thermus Thermophilus
Hb8
pdb|1WZO|C Chain C, Crystal Structure Of The Hpce From Thermus Thermophilus
Hb8
pdb|1WZO|D Chain D, Crystal Structure Of The Hpce From Thermus Thermophilus
Hb8
Length = 246
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 42 GKTIQV-ISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYK 79
GK + V +++ + E GLSRP+ P L P+++L +K
Sbjct: 44 GKILGVALNYADHAEELGLSRPEEPALFWKPNTSLLPHK 82
>pdb|3IAI|A Chain A, Crystal Structure Of The Catalytic Domain Of The
Tumor-Associated Human Carbonic Anhydrase Ix
pdb|3IAI|B Chain B, Crystal Structure Of The Catalytic Domain Of The
Tumor-Associated Human Carbonic Anhydrase Ix
pdb|3IAI|C Chain C, Crystal Structure Of The Catalytic Domain Of The
Tumor-Associated Human Carbonic Anhydrase Ix
pdb|3IAI|D Chain D, Crystal Structure Of The Catalytic Domain Of The
Tumor-Associated Human Carbonic Anhydrase Ix
Length = 257
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 8 RNLKLAGYQLVGLNWLAVM---HNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKS 64
R L+L G+QL L L + H+ QL EM LG + + +LH RP S
Sbjct: 44 RPLELLGFQLPPLPELRLRNNGHSVQLTLPPGLEMALGPGREYRALQLHLHWGAAGRPGS 103
Query: 65 PHLI 68
H +
Sbjct: 104 EHTV 107
>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 = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 26/101 (25%)
Query: 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80
+L + N Q+ + E G GKT Q+ F+ + + PHL
Sbjct: 101 EFLKLYQNNQIM-VFVGETGSGKTTQIPQFVLF--------DEMPHL------------- 138
Query: 81 PSRWRTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYN 121
+ T P + ++VAQ E D +EVGY+
Sbjct: 139 ----ENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYS 175
>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 = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 26/101 (25%)
Query: 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80
+L + N Q+ + E G GKT Q+ F+ + + PHL
Sbjct: 101 EFLKLYQNNQIM-VFVGETGSGKTTQIPQFVLF--------DEMPHL------------- 138
Query: 81 PSRWRTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYN 121
+ T P + ++VAQ E D +EVGY+
Sbjct: 139 ----ENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYS 175
>pdb|4AM6|A Chain A, C-terminal Domain Of Actin-related Protein Arp8 From S.
Cerevisiae
pdb|4AM6|B Chain B, C-terminal Domain Of Actin-related Protein Arp8 From S.
Cerevisiae
pdb|4AM7|A Chain A, Adp-bound C-terminal Domain Of Actin-related Protein
Arp8 From S. Cerevisiae
pdb|4AM7|B Chain B, Adp-bound C-terminal Domain Of Actin-related Protein
Arp8 From S. Cerevisiae
Length = 655
Score = 25.8 bits (55), Expect = 7.8, Method: Composition-based stats.
Identities = 15/59 (25%), Positives = 24/59 (40%), Gaps = 4/59 (6%)
Query: 26 MHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSRW 84
MH++ L DE+ L I + + PK H ++VP+ VP +W
Sbjct: 21 MHSEASAAPLNDEIDLNDPTATIVIHPGSNSIKIGFPKDDHPVVVPNCV----AVPKKW 75
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 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,834,777
Number of Sequences: 62578
Number of extensions: 135463
Number of successful extensions: 255
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 247
Number of HSP's gapped (non-prelim): 12
length of query: 131
length of database: 14,973,337
effective HSP length: 88
effective length of query: 43
effective length of database: 9,466,473
effective search space: 407058339
effective search space used: 407058339
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: 46 (22.3 bits)