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= psy8265
(630 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 61/116 (52%), Gaps = 4/116 (3%)
Query: 269 LEIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQ 328
+E P++E F S+H L+ + +D R ++GY E+ GYD H DDL +A H+
Sbjct: 246 VEEPNEE--FTSRHSLEWKFLFLDHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHE 303
Query: 329 ELLKTGASGMIAYRFQTNDGGWQWLQTSSRLVYK--NSKPDFVISTHRPLMEEEGR 382
L++ G YRF T W WLQT + Y NS+P+F++ TH + E R
Sbjct: 304 HLMQYGKGKSCYYRFLTKGQQWIWLQTHYYITYHQWNSRPEFIVCTHTVVSYAEVR 359
>pdb|2A24|A Chain A, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 107
Score = 55.5 bits (132), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 2/105 (1%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F S+H +D+ D R L+GY EL Y+ H D + +HQ L G
Sbjct: 3 FLSRHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVV 62
Query: 338 MIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
YR GG+ WL+T ++Y +N +P ++ + L E E
Sbjct: 63 SGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 107
>pdb|1P97|A Chain A, Nmr Structure Of The C-Terminal Pas Domain Of Hif2a
Length = 114
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 2/105 (1%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F S+H +D+ D R L+GY EL Y+ H D + +HQ L G
Sbjct: 8 FLSRHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVV 67
Query: 338 MIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
YR GG+ WL+T ++Y +N +P ++ + L E E
Sbjct: 68 SGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 112
>pdb|3F1N|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With Internally
Bound Ethylene Glycol.
pdb|3F1O|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With An
Internally- Bound Artificial Ligand
pdb|3F1P|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains
pdb|3H7W|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths017
pdb|3H82|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths020
pdb|4GHI|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-terminal Pas Domains In Complex With A
Benzoxadiazole Antagonist
Length = 117
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 47/105 (44%), Gaps = 2/105 (1%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F S+H +D+ D R L+GY EL Y+ H D + +HQ L G
Sbjct: 11 FLSEHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVV 70
Query: 338 MIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
YR GG+ WL+T ++Y +N +P ++ + L E E
Sbjct: 71 SGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 115
>pdb|4H6J|A Chain A, Identification Of Cys 255 In Hif-1 As A Novel Site For
Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
DOMAIN PROTEIN-Protein Interaction
Length = 113
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 46/97 (47%), Gaps = 2/97 (2%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F S+H LD+ D+R L+GY EL Y+ H D ++ H ++ G
Sbjct: 7 FLSEHSLDMKFSYCDERITELMGYEPEELLGRSIYEYYHALDSDHLTKTHHDMFTKGQVT 66
Query: 338 MIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVIST 372
YR GG+ W++T + ++Y KNS+P ++
Sbjct: 67 TGQYRMLAKRGGYVWVETQATVIYNTKNSQPQCIVCV 103
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 48/91 (52%), Gaps = 1/91 (1%)
Query: 266 PSLLEIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVAS 325
P+ EI K + + S+H +D V +DQR +L Y EL Y+ H DD+ ++A
Sbjct: 268 PANGEIRVKSMEYVSRHAIDGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAE 327
Query: 326 AHQELLKTGASGMI-AYRFQTNDGGWQWLQT 355
H+++L+T Y+F+ DG + L++
Sbjct: 328 CHRQVLQTREKITTNCYKFKIKDGSFITLRS 358
>pdb|4H6J|B Chain B, Identification Of Cys 255 In Hif-1 As A Novel Site For
Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
DOMAIN PROTEIN-Protein Interaction
Length = 116
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 9 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 68
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+ +RF++ + W W++TSS ++N D ++I T+
Sbjct: 69 LSVMFRFRSKNQEWLWMRTSS-FTFQNPYSDEIEYIICTN 107
>pdb|2B02|A Chain A, Crystal Structure Of Arnt Pas-B Domain
Length = 119
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 48/100 (48%), Gaps = 5/100 (5%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 12 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 71
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+ +RF++ + W W +TSS ++N D ++I T+
Sbjct: 72 LSVXFRFRSKNQEWLWXRTSS-FTFQNPYSDEIEYIICTN 110
>pdb|2KDK|A Chain A, Structure Of Human Circadian Clock Protein Bmal2
C-Terminal Pas Domain
Length = 121
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 270 EIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQE 329
EI K F ++ ++ V +DQR +LGY EL Y+ H DD + H+
Sbjct: 7 EINVKPTEFITRFAVNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHNNLTDKHKA 66
Query: 330 LLKTGASGMI-AYRFQTNDGGW-----QWL 353
+L++ + +Y+F+ DG + QW
Sbjct: 67 VLQSKEKILTDSYKFRAKDGSFVTLKSQWF 96
>pdb|2A24|B Chain B, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 108
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 6 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 65
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+ +RF++ + W W++TSS ++N D ++I T+
Sbjct: 66 LSVMFRFRSKNQEWLWMRTSS-FTFQNPYSDEIEYIICTN 104
>pdb|3F1N|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With Internally
Bound Ethylene Glycol.
pdb|3F1O|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains, With An
Internally- Bound Artificial Ligand
pdb|3F1P|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains
pdb|3H7W|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths017
pdb|3H82|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-Terminal Pas Domains With The
Artificial Ligand Ths020
pdb|4GHI|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
Alpha And Arnt C-terminal Pas Domains In Complex With A
Benzoxadiazole Antagonist
Length = 121
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 14 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 73
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+ +RF++ + W W++TSS ++N D ++I T+
Sbjct: 74 LSVMFRFRSKNQEWLWMRTSS-FTFQNPYSDEIEYIICTN 112
>pdb|2HV1|A Chain A, Haddock Structure Of Arnt Pas-B Homodimer
pdb|2HV1|B Chain B, Haddock Structure Of Arnt Pas-B Homodimer
pdb|1X0O|A Chain A, Human Arnt C-Terminal Pas Domain
Length = 119
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 12 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 71
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+ +RF++ + W W++TSS ++N D ++I T+
Sbjct: 72 LSVMFRFRSKNQEWLWMRTSS-FTFQNPYSDEIEYIICTN 110
>pdb|2K7S|A Chain A, Human Arnt C-Terminal Pas Domain, 3 Residue Ib Slip
Length = 119
Score = 39.7 bits (91), Expect = 0.006, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 41/82 (50%), Gaps = 1/82 (1%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLK-TGAS 336
F S+H ++ +D R +GY EL + H +D + + Q+++K G
Sbjct: 12 FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQV 71
Query: 337 GMIAYRFQTNDGGWQWLQTSSR 358
+ +RF++ + W W++TSS+
Sbjct: 72 LSVMFRFRSKNQEWLWMRTSSQ 93
>pdb|4DJ3|A Chain A, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
pdb|4DJ3|B Chain B, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
Length = 317
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 32/123 (26%), Positives = 52/123 (42%), Gaps = 5/123 (4%)
Query: 271 IPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQEL 330
IP + +F + H + +D+R LLGY +L +H +D + + HQ++
Sbjct: 169 IPVDKRIFTTTHTPGCVFLEVDERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVAIHQKV 228
Query: 331 LKTGASGMIAY---RFQTNDGGWQWLQTS-SRLVYKNS-KPDFVISTHRPLMEEEGRDLL 385
LK + RF T +G + L +S S V S K F+I H+ D+
Sbjct: 229 LKYAGHPPFEHSPVRFCTQNGEYVILDSSWSSFVNPWSRKVSFIIGRHKVRTSPLNEDVF 288
Query: 386 GKR 388
R
Sbjct: 289 ATR 291
>pdb|3GDI|A Chain A, Mammalian Clock Protein Mper2 - Crystal Struture Of A Pas
Domain Fragment
pdb|3GDI|B Chain B, Mammalian Clock Protein Mper2 - Crystal Struture Of A Pas
Domain Fragment
Length = 309
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 51/108 (47%), Gaps = 4/108 (3%)
Query: 271 IPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQEL 330
IP ++ +F + H + ++D+R LLGY +L +H D + + H+++
Sbjct: 160 IPPEKRIFTTTHTPNCLFQAVDERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLAIHKKI 219
Query: 331 LKTGASGM--IAYRFQTNDGGWQWLQT--SSRLVYKNSKPDFVISTHR 374
L+ G RF+T +G + L T SS + + K F+I H+
Sbjct: 220 LQAGGQPFDYSPIRFRTRNGEYITLDTSWSSFINPWSRKISFIIGRHK 267
>pdb|3MR0|A Chain A, Crystal Structure Of Sensory Box Histidine KinaseRESPONSE
REGULATOR From Burkholderia Thailandensis E264
pdb|3MR0|B Chain B, Crystal Structure Of Sensory Box Histidine KinaseRESPONSE
REGULATOR From Burkholderia Thailandensis E264
Length = 142
Score = 35.4 bits (80), Expect = 0.090, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 296 KMLLGYSDTELAN--MGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWL 353
K + GY D EL + G + +H DD A V +A + L+ + + YR +T G ++W+
Sbjct: 39 KKIXGYEDHELPDEITGHRESIHPDDRARVLAALKAHLEHRDTYDVEYRVRTRSGDFRWI 98
Query: 354 QTSSRLVYKNS 364
Q+ + ++ ++
Sbjct: 99 QSRGQALWNSA 109
>pdb|1WA9|A Chain A, Crystal Structure Of The Pas Repeat Region Of The
Drosophila Clock Protein Period
pdb|1WA9|B Chain B, Crystal Structure Of The Pas Repeat Region Of The
Drosophila Clock Protein Period
Length = 368
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 47/104 (45%), Gaps = 7/104 (6%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F +H + +D LGY +L D H++DL+ + ++ ++K G +
Sbjct: 160 FAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTA 219
Query: 338 MIA-----YRFQTNDGGWQWLQT--SSRLVYKNSKPDFVISTHR 374
+ YRF +G + L+T +S + + K +FV+ HR
Sbjct: 220 GASFCSKPYRFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHR 263
>pdb|3RTY|A Chain A, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|B Chain B, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|C Chain C, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|D Chain D, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|E Chain E, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|F Chain F, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|G Chain G, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
pdb|3RTY|H Chain H, Structure Of An Enclosed Dimer Formed By The Drosophila
Period Protein
Length = 339
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 47/104 (45%), Gaps = 7/104 (6%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F +H + +D LGY +L D H++DL+ + ++ ++K G +
Sbjct: 156 FAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTA 215
Query: 338 MIA-----YRFQTNDGGWQWLQT--SSRLVYKNSKPDFVISTHR 374
+ YRF +G + L+T +S + + K +FV+ HR
Sbjct: 216 GASFCSKPYRFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHR 259
>pdb|3GEC|A Chain A, Crystal Structure Of A Tandem Pas Domain Fragment Of
Drosophila Period
Length = 312
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 47/104 (45%), Gaps = 7/104 (6%)
Query: 278 FKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASG 337
F +H + +D LGY +L D H++DL+ + ++ ++K G +
Sbjct: 165 FAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTA 224
Query: 338 MIA-----YRFQTNDGGWQWLQT--SSRLVYKNSKPDFVISTHR 374
+ YRF +G + L+T +S + + K +FV+ HR
Sbjct: 225 GASFCSKPYRFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHR 268
>pdb|4DJ2|A Chain A, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
pdb|4DJ2|B Chain B, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
pdb|4DJ2|C Chain C, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
pdb|4DJ2|D Chain D, Unwinding The Differences Of The Mammalian Period Clock
Proteins From Crystal Structure To Cellular Function
Length = 320
Score = 32.7 bits (73), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 48/109 (44%), Gaps = 4/109 (3%)
Query: 270 EIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQE 329
IP + +F ++H +D+R LLGY +L +H +D + + H++
Sbjct: 170 RIPPDKRIFTTRHTPSCLFQDVDERAAPLLGYLPQDLLGAPVLLFLHPEDRPLMLAIHKK 229
Query: 330 LLKTGASGM--IAYRFQTNDGGWQWLQTS-SRLVYKNS-KPDFVISTHR 374
+L+ RF +G + + TS + V+ S K FV+ H+
Sbjct: 230 ILQLAGQPFDHSPIRFCARNGEYVTMDTSWAGFVHPWSRKVAFVLGRHK 278
>pdb|1CB8|A Chain A, Chondroitinase Ac Lyase From Flavobacterium Heparinum
Length = 678
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 151 EVPRQTVLMW---GSNPSRSPPASPILPNGHINYPSQEIKKYNGDPLKSLAEMNTI 203
EV +W G+ P + A +LP IN P +EIKKYNG K LA N +
Sbjct: 535 EVSGDVFKLWINHGARPENAQYAYIVLPG--INKP-EEIKKYNGTAPKVLANTNQL 587
>pdb|1HM2|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-Oligosaccharide Complexes And
Mutagenesis
pdb|1HM3|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-Oligosaccharide Complexes And
Mutagenesis
pdb|1HMU|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-oligosaccharide Complexes And
Mutagenesis
pdb|1HMW|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-oligosaccharide Complexes And
Mutagenesis
Length = 700
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 151 EVPRQTVLMW---GSNPSRSPPASPILPNGHINYPSQEIKKYNGDPLKSLAEMNTI 203
EV +W G+ P + A +LP IN P +EIKKYNG K LA N +
Sbjct: 557 EVSGDVFKLWINHGARPENAQYAYIVLPG--INKP-EEIKKYNGTAPKVLANTNQL 609
>pdb|1OJ5|A Chain A, Crystal Structure Of The Nco-A1 Pas-B Domain Bound To The
Stat6 Transactivation Domain Lxxll Motif
Length = 132
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 321 AYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSSRLVYKNSKPD---FVISTH 373
+Y QE++ G + +YRF NDG T +L Y S PD F++ H
Sbjct: 55 SYARQLFQEVMTRGTASSPSYRFILNDGTMLSAHTRCKLCYPQS-PDMQPFIMGIH 109
>pdb|3ICY|A Chain A, The Crystal Structure Of Sensory Box Histidine
KinaseRESPONSE REGULATOR DOMAIN FROM CHLOROBIUM TEPIDUM
Tls
pdb|3ICY|B Chain B, The Crystal Structure Of Sensory Box Histidine
KinaseRESPONSE REGULATOR DOMAIN FROM CHLOROBIUM TEPIDUM
Tls
Length = 118
Score = 29.3 bits (64), Expect = 6.9, Method: Composition-based stats.
Identities = 12/44 (27%), Positives = 24/44 (54%)
Query: 315 VHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSSR 358
+H+DD +++A+ +L + S + YR T +G W++ R
Sbjct: 55 IHHDDRHXLSNAYSKLREAKHSLTLVYRIVTPEGKLHWIEDHXR 98
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
0.314 0.132 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,529,980
Number of Sequences: 62578
Number of extensions: 768988
Number of successful extensions: 1180
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1157
Number of HSP's gapped (non-prelim): 27
length of query: 630
length of database: 14,973,337
effective HSP length: 105
effective length of query: 525
effective length of database: 8,402,647
effective search space: 4411389675
effective search space used: 4411389675
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (25.4 bits)