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= psy12190
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 67.0 bits (162), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 54/93 (58%)
Query: 6 GSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQAED 65
G + +ER ++ +FQ + VLS+ A GI LT+AN V+ + +WNP + QA D
Sbjct: 145 GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATD 204
Query: 66 RAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTK 98
R +RIGQ +V++ L++ T ++ + L+ K
Sbjct: 205 RVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFK 237
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 66.6 bits (161), Expect = 3e-12, Method: Composition-based stats.
Identities = 32/93 (34%), Positives = 54/93 (58%)
Query: 6 GSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQAED 65
G + +ER ++ +FQ + VLS+ A GI LT+AN V+ + +WNP + QA D
Sbjct: 374 GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATD 433
Query: 66 RAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTK 98
R +RIGQ +V++ L++ T ++ + L+ K
Sbjct: 434 RVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFK 466
>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 = 66.6 bits (161), Expect = 4e-12, Method: Composition-based stats.
Identities = 32/93 (34%), Positives = 54/93 (58%)
Query: 6 GSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQAED 65
G + +ER ++ +FQ + VLS+ A GI LT+AN V+ + +WNP + QA D
Sbjct: 374 GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATD 433
Query: 66 RAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTK 98
R +RIGQ +V++ L++ T ++ + L+ K
Sbjct: 434 RVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFK 466
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/90 (40%), Positives = 52/90 (57%), Gaps = 1/90 (1%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFR-VAVLSITAANSGITLTAANLVVFAELFWNPGI 59
+ R+DG+V S +R+ +D F D V +LS A GI L A+ VV + WNP
Sbjct: 599 FQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQA 658
Query: 60 LTQAEDRAHRIGQQDSVLIQYLVAKQTADD 89
QA RAHRIGQ++ V++ LV+K T ++
Sbjct: 659 DLQAMARAHRIGQKNHVMVYRLVSKDTVEE 688
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 47.0 bits (110), Expect = 2e-06, Method: Composition-based stats.
Identities = 27/90 (30%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFR-VAVLSITAANSGITLTAANLVVFAELFWNPGI 59
Y+R+DG++ ++R +V++F + +LS A G+ L AN +V + WNP
Sbjct: 443 YVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPAN 502
Query: 60 LTQAEDRAHRIGQQDSVLIQYLVAKQTADD 89
QA R R GQ+ + I L++ T ++
Sbjct: 503 DEQAMARVWRDGQKKTCYIYRLLSTGTIEE 532
>pdb|3OFU|A Chain A, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFU|B Chain B, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFU|C Chain C, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFU|D Chain D, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFU|E Chain E, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFU|F Chain F, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFT|A Chain A, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFT|B Chain B, Crystal Structure Of Cytochrome P450 Cyp101c1
pdb|3OFT|C Chain C, Crystal Structure Of Cytochrome P450 Cyp101c1
Length = 396
Score = 29.6 bits (65), Expect = 0.42, Method: Composition-based stats.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 84 KQTADDYLWPLVMTKLDVP 102
KQ ADDYLWP + ++ P
Sbjct: 183 KQAADDYLWPFIEKRMAQP 201
>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 = 29.3 bits (64), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 32/80 (40%)
Query: 12 ERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQAEDRAHRIG 71
ER F ED +L + G A+ V +L +NP +L Q R RIG
Sbjct: 542 ERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIG 601
Query: 72 QQDSVLIQYLVAKQTADDYL 91
Q + I ++TA L
Sbjct: 602 QAHDIQIHVPYLEKTAQSVL 621
>pdb|1K9D|A Chain A, The 1.7 A Crystal Structure Of Alpha-D-Glucuronidase, A
Family-67 Glycoside Hydrolase From Bacillus
Stearothermophilus T-1
pdb|1L8N|A Chain A, The 1.5a Crystal Structure Of Alpha-d-glucuronidase From
Bacillus Stearothermophilus T-1, Complexed With
4-o-methyl-glucuronic Acid And Xylotriose
pdb|1MQQ|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase From
Bacillus Stearothermophilus T-1 Complexed With
Glucuronic Acid
Length = 679
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 9 GSEERKSVVD----QFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNP 57
GSE +K V+D ++Y V+ + +G TL ANL F L WNP
Sbjct: 421 GSEVKK-VIDGSLFDYRYSGIAGVSNIGSDPNWTGHTLAQANLYGFGRLAWNP 472
>pdb|1MQR|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase (E386q)
From Bacillus Stearothermophilus T-6
Length = 679
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 9 GSEERKSVVD----QFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNP 57
GSE +K V+D ++Y V+ + +G TL ANL F L WNP
Sbjct: 421 GSEVKK-VIDGSLFDYRYSGIAGVSNIGSDPNWTGHTLAQANLYGFGRLAWNP 472
>pdb|1K9E|A Chain A, Crystal Structure Of A Mutated Family-67
Alpha-D-Glucuronidase (E285n) From Bacillus
Stearothermophilus T-6, Complexed With 4-O-Methyl-
Glucuronic Acid
pdb|1K9F|A Chain A, Crystal Structure Of A Mutated Family-67
Alpha-D-Glucuronidase (E285n) From Bacillus
Stearothermophilus T-6, Complexed With Aldotetraouronic
Acid
Length = 679
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 9 GSEERKSVVD----QFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNP 57
GSE +K V+D ++Y V+ + +G TL ANL F L WNP
Sbjct: 421 GSEVKK-VIDGSLFDYRYSGIAGVSNIGSDPNWTGHTLAQANLYGFGRLAWNP 472
>pdb|1MQP|A Chain A, The Crystal Structure Of Alpha-D-Glucuronidase From
Bacillus Stearothermophilus T-6
Length = 679
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 9 GSEERKSVVD----QFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNP 57
GSE +K V+D ++Y V+ + +G TL ANL F L WNP
Sbjct: 421 GSEVKK-VIDGSLFDYRYSGIAGVSNIGSDPNWTGHTLAQANLYGFGRLAWNP 472
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 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,675,937
Number of Sequences: 62578
Number of extensions: 83904
Number of successful extensions: 155
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 142
Number of HSP's gapped (non-prelim): 11
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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: 45 (21.9 bits)