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= psy3448
(154 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K1Q|A Chain A, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
pdb|3IYL|W Chain W, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1299
Score = 30.0 bits (66), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 103 HGHHWPTIRAVWYYSFWPTKSRIM 126
+G H PT V+YYS P +SR++
Sbjct: 194 YGKHRPTYATVFYYSTLPARSRLL 217
>pdb|1MZU|A Chain A, Crystal Structure Of The Photoactive Yellow Protein
Domain From The Sensor Histidine Kinase Ppr From
Rhodospirillum Centenum
pdb|1MZU|B Chain B, Crystal Structure Of The Photoactive Yellow Protein
Domain From The Sensor Histidine Kinase Ppr From
Rhodospirillum Centenum
pdb|1MZU|C Chain C, Crystal Structure Of The Photoactive Yellow Protein
Domain From The Sensor Histidine Kinase Ppr From
Rhodospirillum Centenum
Length = 129
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 11/75 (14%)
Query: 14 YREPVRGWIDNVYG------PVGLMVGIGTGVLHTYQYDQDAVTEMVPVDMVVNSVIATA 67
+ E +RG ID + PVG + G+GV+H Y + ++ +P VI
Sbjct: 12 FTEQIRGTIDGMGTAEFDALPVGAIQVDGSGVIHRYNRTESRLSGRIP-----ERVIGRN 66
Query: 68 WYTAKSNQQQIPIYN 82
++T + IP ++
Sbjct: 67 FFTEVAPCTNIPAFS 81
>pdb|1URD|A Chain A, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius Provide Insight Into
Acid Stability Of Proteins
pdb|1URD|B Chain B, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius Provide Insight Into
Acid Stability Of Proteins
Length = 370
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 18/87 (20%)
Query: 23 DNVYGPVGLMVGIGTGVLHTYQYDQDAVTEMVPVDMVVNSV-----IATAWYTAKSNQQQ 77
+ V+ GLM + +GVL+T Y + + + + V+ + SV +A +Y N++
Sbjct: 68 NGVFAEEGLMAPVPSGVLNTGLYAPNTI-DAIKVNGTMYSVPVSVQVAAIYY----NKKL 122
Query: 78 IPIYNYVSSVQKPVTWNEFLQHNIKHG 104
+P Q P TW EF++ HG
Sbjct: 123 VP--------QPPQTWAEFVKDANAHG 141
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans
pdb|1OWM|A Chain A, Data1:dna Photolyase RECEIVED X-Rays Dose 1.2 Exp15
PhotonsMM2
pdb|1OWN|A Chain A, Data3:dna Photolyase RECEIVED X-Rays Dose 4.8 Exp15
PhotonsMM2
pdb|1OWO|A Chain A, Data4:photoreduced Dna Photolyase RECEIVED X-Rays Dose
1.2 Exp15 PhotonsMM2
pdb|1OWP|A Chain A, Data6:photoreduced Dna Pholyase RECEIVED X-Rays Dose 4.8
Exp15 PhotonsMM2
pdb|1QNF|A Chain A, Structure Of Photolyase
Length = 484
Score = 27.7 bits (60), Expect = 2.7, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 82 NYVSSVQKPVTWNEFLQHNIKHGHHWPTIRAVWYYSFW 119
N + Q+ + W EF QH + +H+P++ Y S W
Sbjct: 275 NSIRVWQQELAWREFYQHAL---YHFPSLADGPYRSLW 309
>pdb|1URG|A Chain A, X-Ray Structures From The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
pdb|1URS|A Chain A, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
pdb|1URS|B Chain B, X-Ray Structures Of The Maltose-Maltodextrin Binding
Protein Of The Thermoacidophilic Bacterium
Alicyclobacillus Acidocaldarius
Length = 402
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 18/87 (20%)
Query: 23 DNVYGPVGLMVGIGTGVLHTYQYDQDAVTEMVPVDMVVNSV-----IATAWYTAKSNQQQ 77
+ V+ GLM + +GVL+T Y + + + + V+ + SV +A +Y N++
Sbjct: 97 NGVFAEEGLMAPVPSGVLNTGLYAPNTI-DAIKVNGTMYSVPVSVQVAAIYY----NKKL 151
Query: 78 IPIYNYVSSVQKPVTWNEFLQHNIKHG 104
+P Q P TW EF++ HG
Sbjct: 152 VP--------QPPQTWAEFVKDANAHG 170
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|B Chain B, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|C Chain C, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|D Chain D, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
Length = 474
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 82 NYVSSVQKPVTWNEFLQHNIKHGHHWPTIRAVWYYSFW 119
N + Q+ + W EF QH + +H+P++ Y S W
Sbjct: 274 NSIRVWQQELAWREFYQHAL---YHFPSLADGPYRSLW 308
>pdb|1AVB|A Chain A, Arcelin-1 From Phaseolus Vulgaris L
pdb|1AVB|B Chain B, Arcelin-1 From Phaseolus Vulgaris L
Length = 226
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 13 TYREPVRGWIDNVYGPVGLMVGIGT---------GVLHTYQYDQDAVTEMVPVDMVVNSV 63
T+R + ++ YG +V +G+ G+ +T YD+DA T V D V N +
Sbjct: 70 TFRINAKNIENSAYGLAFALVPVGSRPKLKGRYLGLFNTTNYDRDAHTVAVVFDTVSNRI 129
>pdb|3QOK|A Chain A, Crystal Structure Of Putative Chitinase Ii From Klebsiella
Pneumoniae
Length = 420
Score = 26.2 bits (56), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 6/74 (8%)
Query: 47 QDAVTE--MVPVDMVVNSVIATAWYTAKSNQQQIPIYNYVSSVQKPVTWN-EFLQHNIKH 103
++AV E +V + + N+ +W K+ P+ NY++ + ++ N+
Sbjct: 184 REAVGEQKLVTIAVGANAESPKSWVDVKA---VAPVLNYINLXTYDXAYGTQYFNSNLYD 240
Query: 104 GHHWPTIRAVWYYS 117
HWPT+ A YS
Sbjct: 241 SSHWPTVAAADKYS 254
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
0.324 0.138 0.456
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,027,953
Number of Sequences: 62578
Number of extensions: 197713
Number of successful extensions: 509
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 506
Number of HSP's gapped (non-prelim): 10
length of query: 154
length of database: 14,973,337
effective HSP length: 90
effective length of query: 64
effective length of database: 9,341,317
effective search space: 597844288
effective search space used: 597844288
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.7 bits)