RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8265
(630 letters)
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 160 bits (407), Expect = 3e-44
Identities = 47/172 (27%), Positives = 73/172 (42%), Gaps = 2/172 (1%)
Query: 214 VVSPKSYYQSYNENGPSERLDIRGRIKILHGQNRKLEEPPLALFAICTPFGPPSLLEIPH 273
V ++S S G I+ H + + +A + TP + +
Sbjct: 189 YVRFIGNFKSLTSVSTSTHNGFEGTIQRTHRPSYEDRVCFVATVRLATPQFIKEMCTVEE 248
Query: 274 KEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKT 333
F S+H L+ + +D R ++GY E+ GYD H DDL +A H+ L++
Sbjct: 249 PNEEFTSRHSLEWKFLFLDHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHEHLMQY 308
Query: 334 GASGMIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEGRD 383
G YRF T W WLQT + Y NS+P+F++ TH + E R
Sbjct: 309 GKGKSCYYRFLTKGQQWIWLQTHYYITYHQWNSRPEFIVCTHTVVSYAEVRA 360
Score = 41.9 bits (98), Expect = 4e-04
Identities = 7/32 (21%), Positives = 15/32 (46%)
Query: 575 SDIVHQSVYELVHSEDREELQRQLMWNSFLPP 606
SD+V QS++ + + E+ + L +
Sbjct: 124 SDLVDQSIFNFIPEGEHSEVYKILSTHLLESD 155
Score = 29.5 bits (66), Expect = 3.3
Identities = 7/37 (18%), Positives = 14/37 (37%)
Query: 563 DQNSKGYSSPFESDIVHQSVYELVHSEDREELQRQLM 599
D + +++ S Y+ H +D E L +
Sbjct: 267 DHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHE 303
>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain,
heterodimer, internal cavity, activator, angiogenesis,
congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A
Length = 117
Score = 128 bits (323), Expect = 3e-35
Identities = 31/106 (29%), Positives = 47/106 (44%), Gaps = 2/106 (1%)
Query: 277 MFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGAS 336
F S+H +D+ D R L+GY EL Y+ H D + +HQ L G
Sbjct: 10 TFLSEHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQV 69
Query: 337 GMIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
YR GG+ WL+T ++Y +N +P ++ + L E E
Sbjct: 70 VSGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEIE 115
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 129 bits (326), Expect = 6e-33
Identities = 42/248 (16%), Positives = 85/248 (34%), Gaps = 19/248 (7%)
Query: 150 SEVPRQTVLMWGSNPSRSPPASPILPNGHINYPSQEIKKYNGDPLKSLAEMNTIGENKWK 209
++V Q L R + + +S K
Sbjct: 142 AKVKEQ--LSSSDTAPRERLIDAKTGLPVKTDITPGPSRLCSGARRSFFCRMKCNRPSVK 199
Query: 210 ESPPVVSPKSYYQSYNENGPSERLDIRGRIKILHGQNRKLEE------------PPLALF 257
+ + + + G +K L+E +A+
Sbjct: 200 VEDKDFASTCSKKKADRKSF-CTIHSTGYLKSWPPTKMGLDEDNEPDNEGCNLSCLVAIG 258
Query: 258 AICTPFGP-PSLLEIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVH 316
+ + P P+ EI K + + S+H +D V +DQR +L Y EL Y+ H
Sbjct: 259 RLHSHMVPQPANGEIRVKSMEYVSRHAIDGKFVFVDQRATAILAYLPQELLGTSCYEYFH 318
Query: 317 YDDLAYVASAHQELLKTGASGM-IAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTH 373
DD+ ++A H+++L+T Y+F+ DG + L++ + ++++ST+
Sbjct: 319 QDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFITLRSRWFSFMNPWTKEVEYIVSTN 378
Query: 374 RPLMEEEG 381
++
Sbjct: 379 TVVLANVL 386
Score = 46.5 bits (110), Expect = 2e-05
Identities = 15/62 (24%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 576 DIVHQSVYELVHSEDREELQRQLMWNSFLPPESA-----GISLQECFLQENSYL---LER 627
D++ QS+++ +H +D +++ QL + P E G+ ++ S L R
Sbjct: 126 DLIGQSLFDYLHPKDIAKVKEQLSSSDTAPRERLIDAKTGLPVKTDITPGPSRLCSGARR 185
Query: 628 SF 629
SF
Sbjct: 186 SF 187
Score = 41.9 bits (98), Expect = 5e-04
Identities = 30/198 (15%), Positives = 57/198 (28%), Gaps = 21/198 (10%)
Query: 410 DQLTPSHQTLAPSPGSAQSGSSSTT--PQRVNRRYKTQLRDFLSTCRTKRKMSAQHAAPP 467
+QL+ S A++G T +R R F CR K +
Sbjct: 146 EQLSSSDTAPRERLIDAKTGLPVKTDITPGPSRLCSGARRSF--FCRMKCNRPSVKVEDK 203
Query: 468 PPTPAPPIEYLTPPDAVAAAYSNMYTTGYSATTPEYMSQSLYDNRLPYE----NLFHQYR 523
+ ++ +++TGY + P DN E +
Sbjct: 204 DFASTCSKKKADRK-----SFCTIHSTGYLKSWPPTKMGLDEDNEPDNEGCNLSCLVAIG 258
Query: 524 PYYPEYQPYTVSNGFSLPTYE--VNKSNDCDKLYCHQTLTADQNSKGYSSPFESDIVHQS 581
+ P + + + E + D ++ DQ + + +++ S
Sbjct: 259 RLHSHMVPQPANGEIRVKSMEYVSRHAIDGKFVFV------DQRATAILAYLPQELLGTS 312
Query: 582 VYELVHSEDREELQRQLM 599
YE H +D L
Sbjct: 313 CYEYFHQDDIGHLAECHR 330
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological
rhythms, cytoplasm, nucleus, phosphoprotein,
transcription; 2.40A {Mus musculus}
Length = 309
Score = 127 bits (319), Expect = 1e-32
Identities = 31/160 (19%), Positives = 60/160 (37%), Gaps = 7/160 (4%)
Query: 231 ERLDIRGRIKILHGQNRKLEEPPLALFAICTPFGPP-SLLEIPHKEVMFKSKHKLDLSLV 289
+ + + + Q E L + IP ++ +F + H +
Sbjct: 121 QPFRMTPYLVKVQEQQG--AESQLCCLLLAERVHSGYEAPRIPPEKRIFTTTHTPNCLFQ 178
Query: 290 SMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGM--IAYRFQTND 347
++D+R LLGY +L +H D + + H+++L+ G RF+T +
Sbjct: 179 AVDERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLAIHKKILQAGGQPFDYSPIRFRTRN 238
Query: 348 GGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEGRDLL 385
G + L TS + K F+I H+ + D+
Sbjct: 239 GEYITLDTSWSSFINPWSRKISFIIGRHKVRVGPLNEDVF 278
Score = 38.0 bits (88), Expect = 0.006
Identities = 10/55 (18%), Positives = 13/55 (23%), Gaps = 4/55 (7%)
Query: 575 SDIVHQSVYELVHSEDREELQRQLMWNSFLPPESAGISLQECFLQENSYLLERSF 629
E + D LPP S L + E+SF
Sbjct: 54 DAFSDAKFVEFLAPHDVSVFHSYTT-PYKLPPWSVCSGLDS---FTQECMEEKSF 104
Score = 29.6 bits (66), Expect = 3.2
Identities = 6/34 (17%), Positives = 12/34 (35%)
Query: 563 DQNSKGYSSPFESDIVHQSVYELVHSEDREELQR 596
D+ + D++ V +H DR +
Sbjct: 181 DERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLA 214
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock
protein, protein binding; 2.75A {Mus musculus}
Length = 320
Score = 127 bits (319), Expect = 1e-32
Identities = 26/161 (16%), Positives = 53/161 (32%), Gaps = 7/161 (4%)
Query: 231 ERLDIRGRIKILHGQNRKLEEPPLALFAICTPFGPP-SLLEIPHKEVMFKSKHKLDLSLV 289
+ + + + + I IP + +F ++H
Sbjct: 132 QPFRLTPYVTKIRVSDG--APAQPCCLLIAERIHSGYEAPRIPPDKRIFTTRHTPSCLFQ 189
Query: 290 SMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTG--ASGMIAYRFQTND 347
+D+R LLGY +L +H +D + + H+++L+ RF +
Sbjct: 190 DVDERAAPLLGYLPQDLLGAPVLLFLHPEDRPLMLAIHKKILQLAGQPFDHSPIRFCARN 249
Query: 348 GGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEGRDLLG 386
G + + TS + K FV+ H+ D+
Sbjct: 250 GEYVTMDTSWAGFVHPWSRKVAFVLGRHKVRTAPLNEDVFT 290
Score = 46.1 bits (109), Expect = 2e-05
Identities = 10/56 (17%), Positives = 14/56 (25%), Gaps = 4/56 (7%)
Query: 575 SDIVHQSVYELVHSEDREELQRQLMWNSFLPPESAGISLQECFLQENSYLLERSFT 630
EL+ +D S LP G S + E+S
Sbjct: 65 DVFRGARFSELLAPQDVGVFYGSTT-PSRLPTWGTGTSAGS---GLKDFTQEKSVF 116
Score = 29.6 bits (66), Expect = 3.2
Identities = 7/34 (20%), Positives = 13/34 (38%)
Query: 563 DQNSKGYSSPFESDIVHQSVYELVHSEDREELQR 596
D+ + D++ V +H EDR +
Sbjct: 192 DERAAPLLGYLPQDLLGAPVLLFLHPEDRPLMLA 225
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm,
protein binding; 2.50A {Mus musculus}
Length = 317
Score = 125 bits (315), Expect = 5e-32
Identities = 34/164 (20%), Positives = 58/164 (35%), Gaps = 6/164 (3%)
Query: 226 ENGPSERLDIRGRIKILHGQNRKLEEPPLALFAICTPFGPPSLLEIPHKEVMFKSKHKLD 285
E I + +H + E P L + IP + +F + H
Sbjct: 125 EKRHYSPFRILPYLVHVHSSAQP-EPEPCCLTLVEKIHSGYEAPRIPVDKRIFTTTHTPG 183
Query: 286 LSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMI---AYR 342
+ +D+R LLGY +L +H +D + + HQ++LK R
Sbjct: 184 CVFLEVDERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVAIHQKVLKYAGHPPFEHSPVR 243
Query: 343 FQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEGRDL 384
F T +G + L +S + K F+I H+ D+
Sbjct: 244 FCTQNGEYVILDSSWSSFVNPWSRKVSFIIGRHKVRTSPLNEDV 287
Score = 31.2 bits (70), Expect = 0.88
Identities = 4/55 (7%), Positives = 12/55 (21%), Gaps = 5/55 (9%)
Query: 575 SDIVHQSVYELVHSEDREELQRQLMWNSFLPPESAGISLQECFLQENSYLLERSF 629
+ +L+ +D P + + + + F
Sbjct: 65 GFLKSVHFVDLLAPQDVRAFYAHT--APTQLPFWNNWTQRASQYECAP---AKPF 114
Score = 28.8 bits (64), Expect = 5.3
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 563 DQNSKGYSSPFESDIVHQSVYELVHSEDREELQR 596
D+ + D++ S+ +H EDR +
Sbjct: 190 DERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVA 223
>2kdk_A ARYL hydrocarbon receptor nuclear translocator-LI 2; circadian
clock, PAS domain, transcription, activator, biolo
rhythms, DNA-binding, nucleus; NMR {Homo sapiens}
Length = 121
Score = 118 bits (299), Expect = 6e-32
Identities = 26/120 (21%), Positives = 53/120 (44%), Gaps = 3/120 (2%)
Query: 264 GPPSLLEIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYV 323
G + EI K F ++ ++ V +DQR +LGY EL Y+ H DD +
Sbjct: 1 GHMNSGEINVKPTEFITRFAVNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHNNL 60
Query: 324 ASAHQELLKT-GASGMIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
H+ +L++ +Y+F+ DG + L++ + ++++S + ++
Sbjct: 61 TDKHKAVLQSKEKILTDSYKFRAKDGSFVTLKSQWFSFTNPDTKELEYIVSVNTLVLGHS 120
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain,
heterodimer, internal cavity, activator, angiogenesis,
congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 2b02_A*
2k7s_A 2a24_B
Length = 121
Score = 109 bits (274), Expect = 2e-28
Identities = 23/110 (20%), Positives = 50/110 (45%), Gaps = 3/110 (2%)
Query: 274 KEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKT 333
+ F S+H ++ +D R +GY EL + H +D + + Q+++K
Sbjct: 10 QPTRFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKL 69
Query: 334 -GASGMIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEE 380
G + +RF++ + W W++TSS + + +++I T+ +
Sbjct: 70 KGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTNTNVKNSS 119
Score = 28.8 bits (65), Expect = 2.1
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 568 GYSSPFESDIVHQSVYELVHSEDREELQRQL 598
GY +++ +++ E H ED++ L+
Sbjct: 36 GYQP---QELLGKNIVEFCHPEDQQLLRDSF 63
>3rty_A Period circadian protein; PAS domain, signalling, timeless,
circadian clock protein; 2.85A {Drosophila melanogaster}
PDB: 1wa9_A 3gec_A
Length = 339
Score = 113 bits (285), Expect = 8e-28
Identities = 31/190 (16%), Positives = 62/190 (32%), Gaps = 15/190 (7%)
Query: 235 IRGRIKILHGQNRKLEE-----PPLALFAICTPFGPP---SLLEIPHKEVMFKSKHKLDL 286
+ + + R + L TP + K F +H
Sbjct: 105 LGLTFREAPEEARPDNYMVSNGTNMLLVICATPIKSSYKVPDEILSQKSPKFAIRHTATG 164
Query: 287 SLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIA-----Y 341
+ +D LGY +L D H++DL+ + ++ ++K G + + Y
Sbjct: 165 IISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPY 224
Query: 342 RFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEGRDLLGKRTMDFKVSYLDA 399
RF +G + L+T + K +FV+ HR + ++ +A
Sbjct: 225 RFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHRVFQGPKQCNVFEAAPTCKLKISEEA 284
Query: 400 GLNNSYFSDS 409
N+ +
Sbjct: 285 QSRNTRIKED 294
Score = 33.5 bits (76), Expect = 0.20
Identities = 6/38 (15%), Positives = 13/38 (34%)
Query: 575 SDIVHQSVYELVHSEDREELQRQLMWNSFLPPESAGIS 612
+ +S + VH +DR Q+ + +
Sbjct: 32 DMWLGRSFIDFVHLKDRATFASQITTGIPIAESRGSVP 69
Score = 33.1 bits (75), Expect = 0.24
Identities = 10/82 (12%), Positives = 23/82 (28%), Gaps = 6/82 (7%)
Query: 518 LFHQYRPYYPEYQPYTVSNGFSLPTYEVNKSNDCDKLYCHQTLTADQNSKGYSSPFESDI 577
L P Y+ P + + + + D + D+
Sbjct: 131 LVICATPIKSSYKVPDEILSQKSPKFAIRHTATGIISHV------DSAAVSALGYLPQDL 184
Query: 578 VHQSVYELVHSEDREELQRQLM 599
+ +S+ + H ED ++
Sbjct: 185 IGRSIMDFYHHEDLSVMKETYE 206
>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator,
complex, LXXLL motif, transcriptional regulation; 2.2A
{Mus musculus} SCOP: d.110.3.8
Length = 132
Score = 82.7 bits (204), Expect = 5e-19
Identities = 25/111 (22%), Positives = 39/111 (35%), Gaps = 9/111 (8%)
Query: 278 FKSKHKLDLSLVSMDQ---RGKMLLGYSDTELANMGGYDLVHYDD--LAYVASAHQELLK 332
F +K ++S+D R G+ D + Y +Y QE++
Sbjct: 9 FMTKQDTTGKIISIDTSSLRAAGRTGWEDLVRKCI--YAFFQPQGREPSYARQLFQEVMT 66
Query: 333 TGASGMIAYRFQTNDGGWQWLQTSSRLVY--KNSKPDFVISTHRPLMEEEG 381
G + +YRF NDG T +L Y F++ H E G
Sbjct: 67 RGTASSPSYRFILNDGTMLSAHTRCKLCYPQSPDMQPFIMGIHIIDREHSG 117
>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein.,
structural genomics, PSI-2, protein STR initiative;
1.90A {Marinobacter aquaeolei}
Length = 115
Score = 56.5 bits (137), Expect = 4e-10
Identities = 14/92 (15%), Positives = 33/92 (35%), Gaps = 7/92 (7%)
Query: 296 KMLLGYSDTELANMGGY-DLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQ 354
+ LLG+ ++ + +H +D +V + + + G YR DG + W++
Sbjct: 24 EALLGWPQGSWKSVEDWATRMHPEDQEWVVNFCVKQSECGVDHEADYRALHRDGHYVWIR 83
Query: 355 TSSRLVY-KNSKPDFVISTH-----RPLMEEE 380
+V + + + +I
Sbjct: 84 DVVHVVRDDSGEVEALIGFMFDISLEHHHHHH 115
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory
system, two-component signal transduction, transferase,
phosphorylation, SCOD; 1.7A {Bacillus subtilis}
Length = 111
Score = 56.3 bits (136), Expect = 5e-10
Identities = 18/86 (20%), Positives = 32/86 (37%), Gaps = 4/86 (4%)
Query: 296 KMLLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQT 355
K+ LGY E+ +H +D V S +RF D W++
Sbjct: 29 KLHLGYLQGEMIGSFLKTFLHEEDQFLVES---YFYNEHHLMPCTFRFIKKDHTIVWVEA 85
Query: 356 SSRLVY-KNSKPDFVISTHRPLMEEE 380
+ +V + + + I ++EEE
Sbjct: 86 AVEIVTTRAERTEREIILKMKVLEEE 111
Score = 29.3 bits (66), Expect = 1.1
Identities = 5/31 (16%), Positives = 14/31 (45%), Gaps = 3/31 (9%)
Query: 568 GYSSPFESDIVHQSVYELVHSEDREELQRQL 598
GY + +++ + +H ED+ ++
Sbjct: 33 GYL---QGEMIGSFLKTFLHEEDQFLVESYF 60
>3icy_A Sensor protein; sensory box histidine kinase/response regulator
domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A
{Chlorobaculum tepidum}
Length = 118
Score = 48.8 bits (117), Expect = 2e-07
Identities = 13/64 (20%), Positives = 28/64 (43%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSS 357
L + ++H+DD +++A+ +L + S + YR T +G W++
Sbjct: 38 TLVSEHAGTTRLNTLSMIHHDDRHMLSNAYSKLREAKHSLTLVYRIVTPEGKLHWIEDHM 97
Query: 358 RLVY 361
R +
Sbjct: 98 RSSF 101
>3mr0_A Sensory box histidine kinase/response regulator; PAS fold,
structural genomics, PSI-2; HET: PG5; 1.49A
{Burkholderia thailandensis}
Length = 142
Score = 48.3 bits (116), Expect = 6e-07
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 289 VSMDQRGKMLLGYSDTELANMGG--YDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTN 346
+ + K ++GY D EL + + +H DD A V +A + L+ + + YR +T
Sbjct: 32 MYLSPHFKKIMGYEDHELPDEITGHRESIHPDDRARVLAALKAHLEHRDTYDVEYRVRTR 91
Query: 347 DGGWQWLQTSSRLVY 361
G ++W+Q+ + ++
Sbjct: 92 SGDFRWIQSRGQALW 106
>3eeh_A Putative light and redox sensing histidine kinase; structural
genomic MCSG, protein structure initiative, midwest
center for STRU genomics; HET: PG5; 1.95A {Haloarcula
marismortui}
Length = 125
Score = 46.8 bits (112), Expect = 1e-06
Identities = 11/71 (15%), Positives = 24/71 (33%), Gaps = 3/71 (4%)
Query: 293 QRGKMLLGYSDTELANMGG--YDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGW 350
+ + G S +L + +H +D + Q L+ G S + R +
Sbjct: 39 SAYEDIWGRSVAKLRENPHDFLNGIHPEDRELMKDTMQSLM-DGESADVECRVNATEEYQ 97
Query: 351 QWLQTSSRLVY 361
+W+ +
Sbjct: 98 RWVWIQGEPIT 108
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 48.5 bits (115), Expect = 6e-06
Identities = 61/429 (14%), Positives = 118/429 (27%), Gaps = 169/429 (39%)
Query: 265 PPSLLEIPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVA 324
P + E+ K + + S + DQ + L + + G D +H A A
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCY--LEGND-IH----ALAA 106
Query: 325 SAHQELLKTGASGMIAYRFQTNDGGWQWLQTSSRLVYKNSKPDFVISTHRPLMEEEGRDL 384
LL+ + ++ + + ++ Y ++ I RP ++ L
Sbjct: 107 K----LLQENDTTLVKTK--------ELIKN-----YITAR----IMAKRPFDKKSNSAL 145
Query: 385 LGK-RTMDFKVSYLDA-----GLNNSYFSDSDQLTPSHQTLAPSPGSAQSGSSSTTPQRV 438
+ ++ A G + YF ++L + +
Sbjct: 146 FRAVGEGNAQL-V--AIFGGQGNTDDYF---EEL-----------------------RDL 176
Query: 439 NRRYKTQLRDFLSTCRTK-RKMSAQHAAPPP--------------PTPAPPIEYL-TPPD 482
+ Y + D + ++ P+ P +YL + P
Sbjct: 177 YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI 236
Query: 483 AV-------AAAYSNM-YTTGYSATTPEYMS-------------------------QSLY 509
+ A Y G+ TP + +S +
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGF---TPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 510 DN-RLPYENLF------HQYRPYYPEYQPYTVSNGFSLPTYEVNKSNDCDKLYCHQTLTA 562
+ R LF ++ YP SLP + S +
Sbjct: 294 VSVRKAITVLFFIGVRCYE---AYPNT---------SLPPSILEDSLE------------ 329
Query: 563 DQNSKGYSSPFESDIVHQSVYELVHSEDREELQRQL-MWNSFLPPESA-GISLQECFLQE 620
N++G SP S + + +E++Q + NS LP ISL
Sbjct: 330 --NNEGVPSPMLS----------ISNLTQEQVQDYVNKTNSHLPAGKQVEISLV------ 371
Query: 621 NSYLLERSF 629
N ++
Sbjct: 372 NGA---KNL 377
Score = 45.0 bits (106), Expect = 8e-05
Identities = 85/531 (16%), Positives = 143/531 (26%), Gaps = 193/531 (36%)
Query: 6 EENQYRSRGELGRYLLRY-----------H-FV--LTPLNSVINLITHAIYRPYYPEYQP 51
E ++ ++ L H L N + T + + Y
Sbjct: 73 EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI---TA 129
Query: 52 YTVSNGFSLPTYEVNKSNDCDKLYCHQTLTADQNSK--------GYSSPYIT-L------ 96
++ P + + S L+ + N++ G + Y L
Sbjct: 130 RIMAKR---PFDKKSNS----ALFRA---VGEGNAQLVAIFGGQGNTDDYFEELRDLYQT 179
Query: 97 --PLCSDLPQSHKLPSKSLNSKSLDGLSSNDSSPVPSNHLVTPKVEDIKSESFNYSEVPR 154
L DL + +++L L V + +I
Sbjct: 180 YHVLVGDLIKFS--------AETLSELIRTTLDAEK----VFTQGLNILE---------- 217
Query: 155 QTVLMWGSNPSRSPP-----ASPI-LP-NGHI---NY----------PSQEIKKYNGDPL 194
W NPS +P + PI P G I +Y P + G
Sbjct: 218 -----WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 195 KS--------LAEMNT-----------------IGENKWKESPPVVSPKSYYQSYNENG- 228
S +AE ++ IG ++ P P S + EN
Sbjct: 273 HSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNE 332
Query: 229 --PSERLDIRGR-----IKILHGQNRKLEEPP---LALF-----AICTPFGPP-SL--LE 270
PS L I ++ N L ++L + + GPP SL L
Sbjct: 333 GVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS--GPPQSLYGLN 390
Query: 271 IPHKEVMFKSKHKLDLSLVSMDQRGKMLLGYSDTELANMGGYDLV----HYDDLAYVASA 326
+ ++ K+ LD S + +R K+ + V H + A
Sbjct: 391 LTLRKA--KAPSGLDQSRIPFSER-KLKFSNR---------FLPVASPFHSH---LLVPA 435
Query: 327 HQELLKTGASGMIAYR--------FQTNDGG-WQWLQTS--SRLVYKN-SKP-------- 366
+ K +++ + T DG + L S R+V P
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 367 -------DF---VISTHRPLMEE--EGRDLLGKRTMDFKVSYLDAGLNNSY 405
DF S L +G G R + LD ++ Y
Sbjct: 496 FKATHILDFGPGGASGLGVLTHRNKDGT---GVRVIV--AGTLDINPDDDY 541
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.5 bits (112), Expect = 1e-05
Identities = 60/438 (13%), Positives = 118/438 (26%), Gaps = 149/438 (34%)
Query: 315 VHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSSRLVYKN--SKPDFVIST 372
V + ++ S + + + Y Q + L +++ K S+ +
Sbjct: 86 VLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR-----LYNDNQVFAKYNVSRLQPYLKL 140
Query: 373 HRPLME-EEGRDLL-------GK--------------RTMDFKVSYLDAGLNNSYFSDSD 410
+ L+E +++L GK MDFK+ +L+ NS + +
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 411 QLTPSHQTL---APSPGSAQSGSSSTTPQRVN------------RRYKTQL---RD---- 448
L Q L +++S SS R++ + Y+ L +
Sbjct: 201 ML----QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256
Query: 449 -----FLSTCR---TKRKMSAQHAAPPPPTPAPPIEY----LT----------------- 479
F +C+ T R T +++ LT
Sbjct: 257 KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
Query: 480 --PPDA----------VAAAYSNMYTTGYSATTPEYMSQSLYDN-----RLPYENL-FHQ 521
P + +A + + T + D L +
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDG------LATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 522 YRPYY------PE--YQPYTVSNGFSLPTYEVNKSNDCDKLY---CHQTLTADQNSKGYS 570
YR + P + P + L + + H+ ++ K +
Sbjct: 371 YRKMFDRLSVFPPSAHIPTIL-----LSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 571 SPFESDIVHQSVY--ELVHSEDREELQRQLM----------WNSFLPPESAG-----IS- 612
+ S+Y V E+ L R ++ + +PP I
Sbjct: 426 IS-----IP-SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 613 -LQECFLQENSYLLERSF 629
L+ E L F
Sbjct: 480 HLKNIEHPERMTLFRMVF 497
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; 2.37A {Chromobacterium violaceum}
Length = 125
Score = 43.3 bits (103), Expect = 2e-05
Identities = 13/68 (19%), Positives = 19/68 (27%), Gaps = 6/68 (8%)
Query: 298 LLGYSDTELANMGGYD----LVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWL 353
+ G D VH DD A V + + YR DG + L
Sbjct: 39 IFGTDSATFD--ATEDAYFQRVHPDDRARVRRELDRHVLGDRPFDVEYRIVRPDGQVREL 96
Query: 354 QTSSRLVY 361
+ +
Sbjct: 97 LERNHIQR 104
>2r78_A Sensor protein; sensory box sensor histidine kinase/response
regulator, structural genomics, PSI, MCSG; 1.60A
{Geobacter sulfurreducens pca}
Length = 117
Score = 42.5 bits (101), Expect = 4e-05
Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 1/63 (1%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSS 357
+GY+ E + L D + A++ ++ G T +G ++ S+
Sbjct: 43 AIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVG-GEPLREERTVWTRNGDQLTVELSA 101
Query: 358 RLV 360
L+
Sbjct: 102 HLL 104
>3bwl_A Sensor protein; structural genomics, APC87707.1, PAS domain,
HTR-like protei protein structure initiative; HET: MSE
I3A; 1.73A {Haloarcula marismortui atcc 43049}
Length = 126
Score = 37.9 bits (89), Expect = 0.002
Identities = 9/77 (11%), Positives = 22/77 (28%), Gaps = 2/77 (2%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSS 357
LGY ++E+ ++ D V + ++ DG ++
Sbjct: 49 ELGYDESEVLGRSIWEFDLMFDAEDVQTQLSGFSVDE-RRKFEGLYERRDGSTMSVEVHL 107
Query: 358 RLVYKNSKPDFVISTHR 374
+ ++ R
Sbjct: 108 LRFNLEGED-RFLAISR 123
>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium; 2.60A {Desulfitobacterium hafniense}
Length = 126
Score = 36.4 bits (85), Expect = 0.005
Identities = 11/90 (12%), Positives = 25/90 (27%), Gaps = 7/90 (7%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSS 357
LGY+ EL +M + +A EL + + +G +
Sbjct: 31 KLGYTHEELMSMHILTITSAGKMAEGEKILAELFAGK-KESLPLSLEKKEGTSIPAKARI 89
Query: 358 RLVYKNSKPDFVIS-----THRPLMEEEGR 382
+++P + + +
Sbjct: 90 WQGKWHNEP-CLFAIIKDLSKEERASSPPF 118
>3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural
genomics, midwest center for structural genomics; HET:
PGE; 2.49A {Geobacter sulfurreducens}
Length = 114
Score = 35.7 bits (83), Expect = 0.008
Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTS 356
G D ++ M YD + + S H+ L + F DG QWL+
Sbjct: 35 DYGLGDGDILGMSHYD-IFPEIGEEWKSVHRRGLAGEVIRVEEDCFVRADGRTQWLRWE 92
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG,
structural genomics, center for structural genomics;
1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Length = 120
Score = 34.1 bits (79), Expect = 0.034
Identities = 7/78 (8%), Positives = 20/78 (25%), Gaps = 1/78 (1%)
Query: 298 LLGYSDTELANMGGYDLVHYD-DLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTS 356
+ + +L L + + ++ S + G W +
Sbjct: 34 IFRCARADLIGRSFEVLYPSSDEFERIGERISPVMIAHGSYADDRIMKRAGGELFWCHVT 93
Query: 357 SRLVYKNSKPDFVISTHR 374
R + + + + T
Sbjct: 94 GRALDRTAPLAAGVWTFE 111
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 33.5 bits (76), Expect = 0.28
Identities = 23/83 (27%), Positives = 32/83 (38%), Gaps = 5/83 (6%)
Query: 466 PPPPTPAPPIEYLTPPDAVAAAYSNMYT---TGYSATTPEYMSQSL-YDNRLP-YENLFH 520
P P+ +P +P + S Y+ YS T+P Y S Y P Y
Sbjct: 1657 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSP 1716
Query: 521 QYRPYYPEYQPYTVSNGFSLPTY 543
Y P P Y P + S + P+Y
Sbjct: 1717 SYSPTSPSYSPTSPSYSPTSPSY 1739
Score = 30.8 bits (69), Expect = 1.9
Identities = 23/139 (16%), Positives = 40/139 (28%), Gaps = 29/139 (20%)
Query: 408 DSDQLTPSHQTLAPSPG--SAQSGSSSTTPQRVNRRYKTQLRDFLSTCRTKRKMSAQHAA 465
D+ +P Q + + +P + + +
Sbjct: 1501 DAAAFSPLVQGGSEGREGFGDYGLLGAASPYKG--------------------VQSPGYT 1540
Query: 466 PPPPTPAPPIEYLTPPDAVAAAYSNMYTTGYSATTPEYMSQSLYDNRLP-YENLFHQYRP 524
P + P LT P ++ + Y ++P Y S P Y Y P
Sbjct: 1541 SPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTS------PSYSPTSPSYSP 1594
Query: 525 YYPEYQPYTVSNGFSLPTY 543
P Y P + S + P+Y
Sbjct: 1595 TSPSYSPTSPSYSATSPSY 1613
Score = 28.5 bits (63), Expect = 9.6
Identities = 29/141 (20%), Positives = 47/141 (33%), Gaps = 30/141 (21%)
Query: 402 NNSYFSDSDQLTPSHQTLAP-----SPGSAQSGSSSTTPQRVNRRYKTQLRDFLSTCRTK 456
+ SY S +P+ + +P SP S +S + + Y
Sbjct: 1624 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS------------- 1670
Query: 457 RKMSAQHAAPPPPTPAPPIEYLTPPDAVAAAYSNMY---TTGYSATTPEYMSQSLYDNRL 513
++ +P P+ +P +P + S Y + YS T+P Y S
Sbjct: 1671 --PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS------ 1722
Query: 514 P-YENLFHQYRPYYPEYQPYT 533
P Y Y P P Y P +
Sbjct: 1723 PSYSPTSPSYSPTSPSYSPTS 1743
>3olo_A Two-component sensor histidine kinase; structural genomics, PSI-2,
protein structure initiative, MI center for structural
genomics, MCSG, TRA; 2.09A {Nostoc SP}
Length = 118
Score = 29.5 bits (67), Expect = 1.4
Identities = 12/77 (15%), Positives = 29/77 (37%), Gaps = 6/77 (7%)
Query: 298 LLGYSDTELANMGGYDLVHYDDLAYVASAHQELLKTGASGMIAYRFQTNDGGWQWLQTSS 357
+ YS +L +M D+ D+ + +E+ + + R+++ G ++ S
Sbjct: 45 MTEYSREQLLSMNLQDI----DVDFALHDWEEIRQKN-NYTFKTRYRSQSGRIFLVEMSL 99
Query: 358 RLVYKNSKPDFVISTHR 374
+ + F R
Sbjct: 100 TFLEDQERR-FSCVFVR 115
>3dhn_A NAD-dependent epimerase/dehydratase; reductase, PF01370,
Q89Z24_bactn, NESG, BTR310, structural genomics, PSI-2;
2.00A {Bacteroides thetaiotaomicron}
Length = 227
Score = 30.1 bits (68), Expect = 1.6
Identities = 14/75 (18%), Positives = 25/75 (33%), Gaps = 15/75 (20%)
Query: 278 FKSKHKLDLSLVS-------MDQRGKMLLGYSDTELANMGGYDLVHYDDLAYVASAH-QE 329
+ ++D S + G+ LG D + ++ G + +D A+A E
Sbjct: 149 LMKEKEIDWVFFSPAADMRPGVRTGRYRLG-KDDMIVDIVGNSHISVED---YAAAMIDE 204
Query: 330 LLKTGASG---MIAY 341
L I Y
Sbjct: 205 LEHPKHHQERFTIGY 219
>3i4g_A SUSD-like carbohydrate binding protein BF1063; structural genomics,
center for structural genomics, JCSG; HET: MSE EPE;
1.35A {Bacteroides fragilis nctc 9343}
Length = 528
Score = 30.1 bits (68), Expect = 2.7
Identities = 25/145 (17%), Positives = 52/145 (35%), Gaps = 24/145 (16%)
Query: 305 ELANMGGYDLVH-YDDLAYVASAH---------QELLKTGASGMIAYRFQTNDGGWQWLQ 354
++ +G + Y +L Y ++ Q L +G+ + DGGW +
Sbjct: 223 DIMELGDNAINANYQELFYPSTGTSNKENIFYIQYLENYLGTGLPQHALSAKDGGWSLVN 282
Query: 355 TSSRLV----YKNSKP-DFVISTHRPLMEEEGRDLLGKRTMDFKVSYLDAGLNNSYFSDS 409
++ L +K+ P + + P + RD R +D+ + Y N + F +
Sbjct: 283 PAADLYESYEFKDGTPFSYDDPRYDPSNLGKDRD---PR-LDYTIYY-----NGAIFMGT 333
Query: 410 DQLTPSHQTLAPSPGSAQSGSSSTT 434
+ + A + +S T
Sbjct: 334 EYKMSPDYSAAKKEKLDYTSEASRT 358
>1lns_A X-prolyl dipeptidyl aminopetidase; alpha beta hydrolase fold; 2.20A
{Lactococcus lactis} SCOP: a.40.2.1 b.18.1.13 c.69.1.21
Length = 763
Score = 29.3 bits (65), Expect = 4.5
Identities = 10/45 (22%), Positives = 19/45 (42%)
Query: 23 YHFVLTPLNSVINLITHAIYRPYYPEYQPYTVSNGFSLPTYEVNK 67
Y+ + T + + L+ H + P Y N SL T++ +
Sbjct: 121 YYLLCTRRKTGMILVEHWVSEGLLPLDNHYHFFNDKSLATFDSSL 165
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 29.2 bits (65), Expect = 5.4
Identities = 12/76 (15%), Positives = 19/76 (25%), Gaps = 1/76 (1%)
Query: 460 SAQHAAPPPPTPAPPIEYLTPPDAVAAAYSNMYTTGYSATTPEYMSQSLYDNRLPYENLF 519
+ Q A P TPAPP P N + P + ++
Sbjct: 16 ATQAANGGPATPAPPALGAAPTGDPKPK-KNKKPKNPTPPRPAGDNATVAAGHATLREHL 74
Query: 520 HQYRPYYPEYQPYTVS 535
+ + Y
Sbjct: 75 RDIKAENTDANFYVCP 90
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 28.9 bits (64), Expect = 6.9
Identities = 34/161 (21%), Positives = 48/161 (29%), Gaps = 6/161 (3%)
Query: 389 TMDFKVSYLDAGLNNSYFSDSDQLTPSHQTLAPSPGSAQSGSSSTTPQRVNRRYKTQLRD 448
T F V + L Q +P S +SG + + + L D
Sbjct: 1438 TGAFDVMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVD 1497
Query: 449 FLSTCRTKRKMSAQHAAPPPPTPAPPIEY-LTPPDAVAAAYSNMYTT---GYSATTPEY- 503
S +A A +P Y P S ++ YS T+P Y
Sbjct: 1498 SGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYS 1557
Query: 504 -MSQSLYDNRLPYENLFHQYRPYYPEYQPYTVSNGFSLPTY 543
S S Y Y P P Y P + S + P+Y
Sbjct: 1558 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1598
>1whn_A Hypothetical protein riken cDNA 2310016K04; double-stranded RNA
binding domain, DSRBD, DSRM, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.50.1.1
Length = 128
Score = 27.2 bits (60), Expect = 8.7
Identities = 10/50 (20%), Positives = 17/50 (34%), Gaps = 7/50 (14%)
Query: 33 VINLITHAIYRPYYPEYQP------YTVSNGFSLPTYEVNKSNDCDKLYC 76
+I + R Y P+ P + P YE D+++C
Sbjct: 10 IIKMAIRFDRRAYPPQITPKMCLLEWCRREKLPQPVYET-VQRTIDRMFC 58
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 9.6
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 184 QEIKK-------YNGDPLKSLAEMN-TI 203
Q +KK Y D +LA + T+
Sbjct: 20 QALKKLQASLKLYADDSAPALA-IKATM 46
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.131 0.391
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,416,167
Number of extensions: 543314
Number of successful extensions: 1011
Number of sequences better than 10.0: 1
Number of HSP's gapped: 976
Number of HSP's successfully gapped: 63
Length of query: 630
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 531
Effective length of database: 3,937,614
Effective search space: 2090873034
Effective search space used: 2090873034
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (27.3 bits)