RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14584
(563 letters)
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 177 bits (449), Expect = 2e-50
Identities = 147/434 (33%), Positives = 202/434 (46%), Gaps = 154/434 (35%)
Query: 218 SRQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSY 277
+R+ HS+IEKRRRDKMN++I EL+++VP C+AMSRKLDKLTVLRMAVQH+KT+RGA + Y
Sbjct: 13 AREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLRGATNPY 72
Query: 278 TEGHYKPAFLTDQELKHLILQAAEGF----------------------------LQNHSE 309
TE +YKP FL+D ELKHLIL+AA+GF L S
Sbjct: 73 TEANYKPTFLSDDELKHLILRAADGFLFVVGCDRGKILFVSESVFKILNYSQNDLIGQSL 132
Query: 310 IE---KRRRDKMNTYIT-------ELSAMVPTLLPVKTADIPAEVSRLCPGARRSFFCRM 359
+ + K+ ++ E T LPVKT DI SRLC GARRSFFCRM
Sbjct: 133 FDYLHPKDIAKVKEQLSSSDTAPRERLIDAKTGLPVKT-DITPGPSRLCSGARRSFFCRM 191
Query: 360 KCKHTPASSSSSSSSNSAPSTQPGPNTPSPGTGSCVKEEPDTTTGAAASCHRKKKQQQSD 419
KC ++ +C +KK ++
Sbjct: 192 KCNRPSVKVEDKDFAS--------------------------------TCSKKKADRK-- 217
Query: 420 RKYSVIQCTGYLKSWAPAKMGLEESEDRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGE 479
+ I TGYLKSW P KMGL+E + E
Sbjct: 218 -SFCTIHSTGYLKSWPPTKMGLDEDNEP-----------------------------DNE 247
Query: 480 TCTLSCLVAVGRVL-ADKTRILNKQVNLRPIQFLSRHALDGKFLFV-------------- 524
C LSCLVA+GR+ + N ++ ++ ++++SRHA+DGKF+FV
Sbjct: 248 GCNLSCLVAIGRLHSHMVPQPANGEIRVKSMEYVSRHAIDGKFVFVDQRATAILAYLPQE 307
Query: 525 ------------------------------------YQFKNKGGTYVQLQSEWKNFRNPW 548
Y+FK K G+++ L+S W +F NPW
Sbjct: 308 LLGTSCYEYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFITLRSRWFSFMNPW 367
Query: 549 TKDIEYLISKNTLI 562
TK++EY++S NT++
Sbjct: 368 TKEVEYIVSTNTVV 381
Score = 55.8 bits (134), Expect = 2e-08
Identities = 32/62 (51%), Positives = 39/62 (62%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSPRERLIDVKSKQVIVGLPVSRQNHSEIEK 227
Q +L+GQS FD LHPKD+AKVKEQL SSD +PRERLID K+ + +
Sbjct: 124 QNDLIGQSLFDYLHPKDIAKVKEQLSSSDTAPRERLIDAKTGLPVKTDITPGPSRLCSGA 183
Query: 228 RR 229
RR
Sbjct: 184 RR 185
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 148 bits (375), Expect = 4e-40
Identities = 74/399 (18%), Positives = 129/399 (32%), Gaps = 111/399 (27%)
Query: 218 SRQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIR----GA 273
R + ++ EK+RRD+ N I EL +M+P +RK+DK TVL+ ++ L+ + +
Sbjct: 12 KRVSRNKSEKKRRDQFNVLIKELGSMLP---GNARKMDKSTVLQKSIDFLRKHKETTAQS 68
Query: 274 VHSYTEGHYKPAFLTDQELKHLILQAAEGFLQNHSEIEKRRRDKMNTYITELSAMVPTLL 333
S +KP FL+++E L+L+A +GF D Y++E V +LL
Sbjct: 69 DASEIRQDWKPTFLSNEEFTQLMLEALDGFFLAIMT------DGSIIYVSE---SVTSLL 119
Query: 334 PVKTAD-IPAEVSRLCPGARRSFFCRMKCKHTPASSSSSSSSNSAPSTQPGPNTPSPGTG 392
+D + + P S ++ S+ S T + +
Sbjct: 120 EHLPSDLVDQSIFNFIPEGEHSEVYKI---------LSTHLLESDSLTPEYLKSKNQLEF 170
Query: 393 SCVKEEPDTTTGAAASCHRKKKQQQSDRKYSVIQCTGYLKSWAPAKMGLEESEDRKYSVI 452
C R + Y ++ G KS
Sbjct: 171 CCH-------------MLRGTIDPKEPSTYEYVRFIGNFKSLTSVSTSTH---------- 207
Query: 453 QCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVGRVLADKTRILNKQVNLRPIQFL 512
G E + C VA R+ + V +F
Sbjct: 208 -------------NGFEGTIQRTHRPSYEDRVCFVATVRLATPQFIKEMCTVEEPNEEFT 254
Query: 513 SRHALDGKFLFV------------------------------------------------ 524
SRH+L+ KFLF+
Sbjct: 255 SRHSLEWKFLFLDHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHEHLMQYGKGKSC 314
Query: 525 -YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
Y+F KG ++ LQ+ + + W E+++ +T++
Sbjct: 315 YYRFLTKGQQWIWLQTHYYITYHQWNSRPEFIVCTHTVV 353
Score = 42.6 bits (100), Expect = 2e-04
Identities = 7/32 (21%), Positives = 16/32 (50%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSP 199
+L+ QS F+ + + ++V + L + L
Sbjct: 123 PSDLVDQSIFNFIPEGEHSEVYKILSTHLLES 154
Score = 28.4 bits (63), Expect = 7.8
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 170 ELLGQSWFDILHPKDVAKVKE 190
E+LG S +D H D+ + +
Sbjct: 280 EVLGTSGYDYYHVDDLENLAK 300
>1an4_A Protein (upstream stimulatory factor); protein-DNA complex, double
helix, overhanging base, transcription/DNA complex; HET:
DNA; 2.90A {Homo sapiens} SCOP: a.38.1.1
Length = 65
Score = 80.1 bits (198), Expect = 6e-19
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSR--KLDKLTVLRMAVQHLKTIRGAVH 275
R H+E+E+RRRDK+N +I +LS ++P S K +L A +++ +R + H
Sbjct: 6 RAQHNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELRQSNH 64
Score = 50.8 bits (122), Expect = 1e-08
Identities = 13/28 (46%), Positives = 21/28 (75%)
Query: 305 QNHSEIEKRRRDKMNTYITELSAMVPTL 332
H+E+E+RRRDK+N +I +LS ++P
Sbjct: 7 AQHNEVERRRRDKINNWIVQLSKIIPDS 34
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological
rhythms, cytoplasm, nucleus, phosphoprotein,
transcription; 2.40A {Mus musculus}
Length = 309
Score = 72.3 bits (177), Expect = 5e-14
Identities = 26/176 (14%), Positives = 50/176 (28%), Gaps = 66/176 (37%)
Query: 438 KMGLEESEDRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVGRVLADKT 497
+G + +Y + T YL + G L CL+ RV +
Sbjct: 109 SVGKHHENEIRYQPFRMTPYLVKVQE------------QQGAESQLCCLLLAERVH---S 153
Query: 498 RILNKQVNLRPIQFLSRHALDGKFLFV--------------------------------- 524
++ F + H + F V
Sbjct: 154 GYEAPRIPPEKRIFTTTHTPNCLFQAVDERAVPLLGYLPQDLIETPVLVQLHPSDRPLML 213
Query: 525 ------------------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
+F+ + G Y+ L + W +F NPW++ I ++I ++ +
Sbjct: 214 AIHKKILQAGGQPFDYSPIRFRTRNGEYITLDTSWSSFINPWSRKISFIIGRHKVR 269
Score = 47.3 bits (112), Expect = 6e-06
Identities = 8/52 (15%), Positives = 13/52 (25%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSPRERLIDVKSKQVIVGLPVSR 219
+ + + L P DV+ L P + S S
Sbjct: 53 KDAFSDAKFVEFLAPHDVSVFHSYTTPYKLPPWSVCSGLDSFTQECMEEKSF 104
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm,
protein binding; 2.50A {Mus musculus}
Length = 317
Score = 69.3 bits (169), Expect = 4e-13
Identities = 28/175 (16%), Positives = 49/175 (28%), Gaps = 67/175 (38%)
Query: 440 GLEESEDRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVGRVLADKTRI 499
G + E R YS + YL + E CL V ++ +
Sbjct: 120 GGGDREKRHYSPFRILPYLVHVHSSAQPEPEP------------CCLTLVEKIH---SGY 164
Query: 500 LNKQVNLRPIQFLSRHALDGKFLFV----------------------------------- 524
++ + F + H FL V
Sbjct: 165 EAPRIPVDKRIFTTTHTPGCVFLEVDERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVAI 224
Query: 525 -----------------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
+F + G YV L S W +F NPW++ + ++I ++ +
Sbjct: 225 HQKVLKYAGHPPFEHSPVRFCTQNGEYVILDSSWSSFVNPWSRKVSFIIGRHKVR 279
Score = 37.3 bits (86), Expect = 0.009
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSP 199
+G L + D+L P+DV + L
Sbjct: 64 RGFLKSVHFVDLLAPQDVRAFYAHTAPTQLPF 95
>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 = 63.1 bits (154), Expect = 2e-12
Identities = 28/112 (25%), Positives = 52/112 (46%), Gaps = 50/112 (44%)
Query: 501 NKQVNLRPIQFLSRHALDGKFLFV------------------------------------ 524
+ ++N++P +F++R A++GKF++V
Sbjct: 5 SGEINVKPTEFITRFAVNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHNNLTDKH 64
Query: 525 --------------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
Y+F+ K G++V L+S+W +F NP TK++EY++S NTL+
Sbjct: 65 KAVLQSKEKILTDSYKFRAKDGSFVTLKSQWFSFTNPDTKELEYIVSVNTLV 116
Score = 30.3 bits (69), Expect = 0.54
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 170 ELLGQSWFDILHPKDVAKVKE 190
ELLG S ++ H D + +
Sbjct: 42 ELLGTSCYEYFHQDDHNNLTD 62
>3rty_A Period circadian protein; PAS domain, signalling, timeless,
circadian clock protein; 2.85A {Drosophila melanogaster}
PDB: 1wa9_A 3gec_A
Length = 339
Score = 64.7 bits (157), Expect = 2e-11
Identities = 21/172 (12%), Positives = 44/172 (25%), Gaps = 60/172 (34%)
Query: 445 EDRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVGRVLADKTRILNKQV 504
Y + + G LV + ++ ++ +
Sbjct: 96 RPVSYEPFRLGLTFREAPEEARPDNYMVSNGTN------MLLVICATPIKSSYKVPDEIL 149
Query: 505 NLRPIQFLSRHALDGKFLFV--------------------YQF----------------- 527
+ + +F RH G V F
Sbjct: 150 SQKSPKFAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVM 209
Query: 528 -----------------KNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
+ G YV L++EW +F NPW++ +E+++ + +
Sbjct: 210 KKGQTAGASFCSKPYRFLIQNGCYVLLETEWTSFVNPWSRKLEFVVGHHRVF 261
Score = 35.4 bits (81), Expect = 0.039
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQL 192
+ LG+S+ D +H KD A Q+
Sbjct: 31 RDMWLGRSFIDFVHLKDRATFASQI 55
>1am9_A Srebp-1A, protein (sterol regulatory element binding protein 1A);
basic-helix-loop- helix-leucine zipper, transcription
factor; HET: DNA; 2.30A {Homo sapiens} SCOP: a.38.1.1
PDB: 1ukl_C
Length = 82
Score = 58.5 bits (142), Expect = 3e-11
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 3/64 (4%)
Query: 216 PVSRQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVH 275
R H+ IEKR R +N I EL +V A KL+K VLR A+ +++ ++ +
Sbjct: 4 GEKRTAHNAIEKRYRSSINDKIIELKDLVVGTEA---KLNKSAVLRKAIDYIRFLQHSNQ 60
Query: 276 SYTE 279
+
Sbjct: 61 KLKQ 64
Score = 43.9 bits (104), Expect = 4e-06
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 305 QNHSEIEKRRRDKMNTYITELSAMVPTL 332
H+ IEKR R +N I EL +V
Sbjct: 8 TAHNAIEKRYRSSINDKIIELKDLVVGT 35
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock
protein, protein binding; 2.75A {Mus musculus}
Length = 320
Score = 63.1 bits (153), Expect = 5e-11
Identities = 21/176 (11%), Positives = 47/176 (26%), Gaps = 66/176 (37%)
Query: 438 KMGLEESEDRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVGRVLADKT 497
+ G + +Y + T Y+ + G CL+ R+ +
Sbjct: 120 RGGPDRDPGPRYQPFRLTPYVTKIRVSD------------GAPAQPCCLLIAERIH---S 164
Query: 498 RILNKQVNLRPIQFLSRHALDGKFLFV--------------------------------- 524
++ F +RH F V
Sbjct: 165 GYEAPRIPPDKRIFTTRHTPSCLFQDVDERAAPLLGYLPQDLLGAPVLLFLHPEDRPLML 224
Query: 525 ------------------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
+F + G YV + + W F +PW++ + +++ ++ +
Sbjct: 225 AIHKKILQLAGQPFDHSPIRFCARNGEYVTMDTSWAGFVHPWSRKVAFVLGRHKVR 280
Score = 50.0 bits (119), Expect = 8e-07
Identities = 8/43 (18%), Positives = 13/43 (30%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSPRERLIDVKSKQ 210
+ G + ++L P+DV S L S
Sbjct: 64 RDVFRGARFSELLAPQDVGVFYGSTTPSRLPTWGTGTSAGSGL 106
>1hlo_A Protein (transcription factor MAX); transcriptional regulation, DNA
binding, complex (transcription factor MAX/DNA),
transcription/DNA complex; HET: DNA; 2.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 80
Score = 57.0 bits (138), Expect = 1e-10
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSYT 278
R +H+ +E++RRD + L VP K + +L A ++++ +R H++
Sbjct: 13 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGE--KASRAQILDKATEYIQYMRRKNHTHQ 70
Query: 279 E 279
+
Sbjct: 71 Q 71
Score = 41.6 bits (98), Expect = 3e-05
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 306 NHSEIEKRRRDKMNTYITELSAMVPTLLPVKT 337
+H+ +E++RRD + L VP+L K
Sbjct: 15 HHNALERKRRDHIKDSFHSLRDSVPSLQGEKA 46
>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 = 56.9 bits (138), Expect = 3e-10
Identities = 17/107 (15%), Positives = 29/107 (27%), Gaps = 49/107 (45%)
Query: 505 NLRPIQFLSRHALDGKFLFV---------------------------------------- 524
L FLS H++D KF +
Sbjct: 5 GLDSKTFLSEHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLC 64
Query: 525 ---------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
Y+ K G YV L+++ NP + ++ N ++
Sbjct: 65 TKGQVVSGQYRMLAKHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVL 111
Score = 29.9 bits (68), Expect = 0.70
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 170 ELLGQSWFDILHPKDVAKVKE 190
ELLG+S ++ H D + +
Sbjct: 38 ELLGRSAYEFYHALDSENMTK 58
>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 = 57.3 bits (139), Expect = 3e-10
Identities = 22/112 (19%), Positives = 44/112 (39%), Gaps = 51/112 (45%)
Query: 502 KQVNL-RPIQFLSRHALDGKFLFV------------------------------------ 524
K +N+ +P +F+SRH ++G F FV
Sbjct: 4 KGLNVCQPTRFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSF 63
Query: 525 --------------YQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
++F++K ++ +++ F+NP++ +IEY+I NT +
Sbjct: 64 QQVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTNTNV 115
Score = 30.3 bits (69), Expect = 0.64
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 170 ELLGQSWFDILHPKDVAKVKEQL 192
ELLG++ + HP+D +++
Sbjct: 41 ELLGKNIVEFCHPEDQQLLRDSF 63
>1nkp_B MAX protein, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1 PDB: 1an2_A* 1r05_A 1nlw_B
Length = 83
Score = 55.8 bits (135), Expect = 3e-10
Identities = 14/61 (22%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSYT 278
R +H+ +E++RRD + L VP K + +L A ++++ +R H++
Sbjct: 3 RAHHNALERKRRDHIKDSFHSLRDSVPSLQGE--KASRAQILDKATEYIQYMRRKNHTHQ 60
Query: 279 E 279
+
Sbjct: 61 Q 61
Score = 42.0 bits (99), Expect = 2e-05
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 306 NHSEIEKRRRDKMNTYITELSAMVPTLLPVK 336
+H+ +E++RRD + L VP+L K
Sbjct: 5 HHNALERKRRDHIKDSFHSLRDSVPSLQGEK 35
>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 = 54.2 bits (130), Expect = 4e-09
Identities = 5/39 (12%), Positives = 13/39 (33%)
Query: 524 VYQFKNKGGTYVQLQSEWKNFRNPWTKDIEYLISKNTLI 562
Y+F GT + + K +++ + +
Sbjct: 74 SYRFILNDGTMLSAHTRCKLCYPQSPDMQPFIMGIHIID 112
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 52.3 bits (126), Expect = 6e-09
Identities = 12/64 (18%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 216 PVSRQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVH 275
V R+ H+ +E++RR+++ L +P + K K+ +L+ A ++ +++
Sbjct: 4 NVKRRTHNVLERQRRNELKRSFFALRDQIPELEN-NEKAPKVVILKKATAYILSVQAEEQ 62
Query: 276 SYTE 279
Sbjct: 63 KLIS 66
Score = 38.5 bits (90), Expect = 5e-04
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 306 NHSEIEKRRRDKMNTYITELSAMVPTL 332
H+ +E++RR+++ L +P L
Sbjct: 9 THNVLERQRRNELKRSFFALRDQIPEL 35
>1a0a_A BHLH, protein (phosphate system positive regulatory protein PHO4);
transcription factor, basic helix loop helix; HET: DNA;
2.80A {Saccharomyces cerevisiae} SCOP: a.38.1.1
Length = 63
Score = 49.8 bits (119), Expect = 2e-08
Identities = 12/63 (19%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 217 VSRQNHSEIEKRRRDKMNTYITELSAMVPMCH---AMSRKLDKLTVLRMAVQHLKTIRGA 273
+ R++H E+ RR+++ + EL++++P +S K T + A ++++ ++
Sbjct: 1 MKRESHKHAEQARRNRLAVALHELASLIPAEWKQQNVSAAPSKATTVEAACRYIRHLQQN 60
Query: 274 VHS 276
+
Sbjct: 61 GST 63
Score = 37.5 bits (87), Expect = 6e-04
Identities = 7/26 (26%), Positives = 17/26 (65%)
Query: 306 NHSEIEKRRRDKMNTYITELSAMVPT 331
+H E+ RR+++ + EL++++P
Sbjct: 5 SHKHAEQARRNRLAVALHELASLIPA 30
>1nlw_A MAD protein, MAX dimerizer; transcription factor, DNA, BHLHZ,
transcription/DNA complex; 2.00A {Homo sapiens} SCOP:
a.38.1.1
Length = 80
Score = 49.4 bits (118), Expect = 5e-08
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 218 SRQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSY 277
SR H+E+EK RR + + +L +VP+ + L++L A H+K + +
Sbjct: 1 SRSTHNEMEKNRRAHLRLSLEKLKGLVPLGPDS-SRHTTLSLLTKAKLHIKKLEDSDRKA 59
Query: 278 TE 279
Sbjct: 60 VH 61
Score = 36.0 bits (83), Expect = 0.003
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 306 NHSEIEKRRRDKMNTYITELSAMVPTL 332
H+E+EK RR + + +L +VP
Sbjct: 4 THNEMEKNRRAHLRLSLEKLKGLVPLG 30
>3u5v_A Protein MAX, transcription factor E2-alpha chimer; basic
helix-loop-helix (BHLH); 1.70A {Mus musculus} PDB:
2ql2_A*
Length = 76
Score = 38.3 bits (89), Expect = 4e-04
Identities = 17/63 (26%), Positives = 28/63 (44%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSYT 278
R +H+ +E++RR +N EL M M + KL +L+ AVQ + + V
Sbjct: 6 RAHHNALERKRRRDINEAFRELGRMCQMHLKSDKAQTKLLILQQAVQVILGLEQQVRERN 65
Query: 279 EGH 281
Sbjct: 66 LNP 68
>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 = 41.4 bits (96), Expect = 8e-04
Identities = 56/405 (13%), Positives = 105/405 (25%), Gaps = 118/405 (29%)
Query: 2 QESSYYSRLLSTTEEGPQDFLCLDEYRPLQ------DNVLSHSV--YYDLQPVQRSTCST 53
S + S + + L + +P + NV + ++L C
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS------CKI 268
Query: 54 --STYVEDGQIPSSSVHPMEYQQADSTRKSKKRKGGSSFHGSDFEEDTGED-SGKSL--K 108
+T Q+ D + H D + K L +
Sbjct: 269 LLTT--RFKQV------------TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR 314
Query: 109 LDDSKKSTCSTSTYVEDGQIPSS-SVHPM---EYQQADSTRKSKKRKGGSSFQHGCAISD 164
D + +T+ I S ++ + + + + S
Sbjct: 315 PQDLPREVLTTNPRRL-SIIAESIRDGLATWDNWKHVNCDKLTTIIE-----------SS 362
Query: 165 LSAQGELLGQSWFDILH--PKDVAKVKEQLFS---SDLSPRE-----------RLIDVKS 208
L+ + FD L P + L S D+ + L++ +
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSA-HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 209 KQVIVGLP-------VSRQNHSEIEKRRRDKMNT----------------YI-------- 237
K+ + +P V +N + + D N Y
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHL 481
Query: 238 -----TELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSYTE-----GHYKPAFL 287
E + M LD L ++H T A S YKP ++
Sbjct: 482 KNIEHPERMTLFRMVF-----LD-FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP-YI 534
Query: 288 TDQELK-HLILQAAEGFLQNHSEIEKRRRDKMNTYITELSAMVPT 331
D + K ++ A FL E + T + ++ M
Sbjct: 535 CDNDPKYERLVNAILDFLPKIEENLICSKY---TDLLRIALMAED 576
Score = 32.5 bits (73), Expect = 0.40
Identities = 26/146 (17%), Positives = 44/146 (30%), Gaps = 55/146 (37%)
Query: 180 LHPKDVAKVKEQLFSSD-------------LSPRE---------------RLIDV---KS 208
KD+ V E F + LS E RL K
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ 75
Query: 209 KQVI---VGLPVSRQNH----SEIEKRRRDK---MNTYITELSAMVPMCHAMSRKLDKLT 258
++++ V V R N+ S I+ +R YI + + + ++ K
Sbjct: 76 EEMVQKFVE-EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL----YNDNQVFAKYN 130
Query: 259 V--------LRMAVQHLKTIRG-AVH 275
V LR A+ L+ + +
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLID 156
Score = 28.3 bits (62), Expect = 9.5
Identities = 53/375 (14%), Positives = 105/375 (28%), Gaps = 99/375 (26%)
Query: 265 QHLKTIRGAV-HSYTE--GHYKPAFLTDQELKHL------ILQAAE--GFLQNHSEIEKR 313
H+ G + Y + ++ AF+ + + K + IL E + + +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 314 RR--DKMNTYITELSAM-VPTLL---------PVKTADI-PA--------EVSRLCPGAR 352
R + + E+ V +L P+KT P+ + RL +
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 353 ---RSFFCRMKCKHTPASSSSSSSSNSAPSTQPGPNTPSPGTGSCVKEEPDTTTGAAASC 409
+ R++ + +P N G K T A C
Sbjct: 125 VFAKYNVSRLQPYLK--------LRQALLELRPAKNVLIDGVLGSGK-----TWVALDVC 171
Query: 410 HRKKKQQQSDRK-Y--SVIQC---------------------TGYLKSWAPAKMGLEESE 445
K Q + D K + ++ C T + K+ + +
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Query: 446 DRKYSVIQCTGYLKS-------WAP---------AKMGL----EESEGEGEGGETCTLSC 485
+++ Y K+ L + + T T
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI-LLTTRFKQVTDFLSAATTTHIS 290
Query: 486 LVAVGRVLA-DKTR-ILNKQVNLRPIQFLSRHALDGKFLFVYQFKNKGGTYVQLQSEWKN 543
L L D+ + +L K ++ RP Q L R L + + + W N
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRP-QDLPREVLTTNPRRLSII---AESIRDGLATWDN 346
Query: 544 FRNPWTKDIEYLISK 558
+++ + +I
Sbjct: 347 WKHVNCDKLTTIIES 361
>2ql2_B Neurod1, neurogenic differentiation factor 1;
basic-helix-loop-helix; HET: DNA; 2.50A {Mus musculus}
Length = 60
Score = 31.5 bits (72), Expect = 0.066
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQ 265
R + E+ R +N + L +VP C++ ++KL K+ LR+A
Sbjct: 3 RMKANARERNRMHGLNAALDNLRKVVP-CYSKTQKLSKIETLRLAKN 48
>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 = 32.8 bits (75), Expect = 0.072
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 168 QGELLGQSWFDILHPKDVAKVKEQLFSSDLSPR 200
QGE++G LH +D V+ ++
Sbjct: 36 QGEMIGSFLKTFLHEEDQFLVESYFYNEHHLMP 68
>1mdy_A Protein (MYOD BHLH domain); protein-DNA complex, transcription/DNA
complex; HET: DNA; 2.80A {Mus musculus} SCOP: a.38.1.1
PDB: 1mdy_B*
Length = 68
Score = 31.2 bits (71), Expect = 0.11
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 219 RQNHSEIEKRRRDKMNTYITELSAMVPMCHAMSRKLDKLTVLRMAVQH 266
R+ + E+RR K+N L +++L K+ +LR A+++
Sbjct: 13 RKAATMRERRRLSKVNEAFETLKRSTSSNP--NQRLPKVEILRNAIRY 58
>2r78_A Sensor protein; sensory box sensor histidine kinase/response
regulator, structural genomics, PSI, MCSG; 1.60A
{Geobacter sulfurreducens pca}
Length = 117
Score = 31.0 bits (71), Expect = 0.30
Identities = 5/23 (21%), Positives = 6/23 (26%)
Query: 170 ELLGQSWFDILHPKDVAKVKEQL 192
E L W + D L
Sbjct: 50 EFLALDWGVLSRGVDSGWAAASL 72
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase,
phosphoprotein, transfe two-component regulatory system;
3.80A {Thermotoga maritima}
Length = 349
Score = 32.2 bits (74), Expect = 0.40
Identities = 19/127 (14%), Positives = 44/127 (34%), Gaps = 22/127 (17%)
Query: 160 CAISDLSAQGELLGQSWFDILHPKDVAKVKEQLFSSDLSPRERLIDVKSKQVIVGLPVSR 219
+ L + +LG+ D+ +++ V E +F + + + R
Sbjct: 38 EQLFGLKKE-NVLGRRLKDLPDFEEIGSVAESVFENKEPVFLNFYKFGERYFNIRFSPFR 96
Query: 220 QNHSEIEKRR----RDKMNTYITELSAMVPMCHAMSRKLDKLTVL-RMA--VQH-----L 267
+++ + D +TEL ++ ++L++L M V H +
Sbjct: 97 NAKTQLLEGVIITIDD-----VTELYKY----EEERKRRERLSILGEMTARVAHEIRNPI 147
Query: 268 KTIRGAV 274
I G +
Sbjct: 148 TIIGGFI 154
>3gbw_A E3 ubiquitin-protein ligase mycbp2; MYC-binding protein 2, protein
associated with MYC, PAM, RPM-1, PHR domain, structural
genomics, PSI-2; HET: MSE; 1.32A {Mus musculus}
Length = 164
Score = 30.8 bits (69), Expect = 0.78
Identities = 17/50 (34%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 81 SKKRKGGSSFHGSDFEEDTGEDSGKSLKLDDSKKSTCSTSTYVEDGQIPS 130
+ G SS GS + D G + SKKS T V GQIP
Sbjct: 108 WARVSGPSSDCGSHGQASITTDDGVIFQFKSSKKSNNGTD--VNAGQIPQ 155
>2wwb_C SEC61BETA, protein transport protein SEC61 subunit beta; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 96
Score = 29.4 bits (65), Expect = 0.91
Identities = 6/59 (10%), Positives = 17/59 (28%)
Query: 365 PASSSSSSSSNSAPSTQPGPNTPSPGTGSCVKEEPDTTTGAAASCHRKKKQQQSDRKYS 423
P + S ++ S+ + + + + + +A R Y+
Sbjct: 2 PGPTPSGTNVGSSGRSPSKAVAARAAGSTVRQRKNASCGTRSAGRTTSAGTGGMWRFYT 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 = 28.8 bits (65), Expect = 1.7
Identities = 2/23 (8%), Positives = 6/23 (26%)
Query: 170 ELLGQSWFDILHPKDVAKVKEQL 192
+ ++H D +
Sbjct: 45 GTTRLNTLSMIHHDDRHMLSNAY 67
>1r73_A TM1492, 50S ribosomal protein L29; ribosome, structural genomics,
PSI, protein structure initiative, joint center for
structural genomics; NMR {Thermotoga maritima} SCOP:
a.2.2.1
Length = 66
Score = 27.6 bits (62), Expect = 1.7
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 290 QELKHLILQAAEGFLQNHSEIEKRRRD--KMNTYITE 324
++L L Q A G L+N S I+ +RD ++ T + E
Sbjct: 23 RQLMELRFQLAMGQLKNTSLIKLTKRDIARIKTILRE 59
>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 = 29.1 bits (64), Expect = 2.2
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 31/58 (53%)
Query: 415 QQQSDRKYSVIQCTGYLKSWAPAKMGLEESEDRKYSVIQCTGYLKSWAPA---KMGLE 469
++Q+ +K +Q + LK +A +S APA K +E
Sbjct: 18 EKQALKK---LQAS--LKLYAD------DS-----------------APALAIKATME 47
>1cb1_A Calbindin D9K; calcium-binding protein; NMR {Sus scrofa} SCOP:
a.39.1.1
Length = 78
Score = 27.7 bits (62), Expect = 2.5
Identities = 9/48 (18%), Positives = 17/48 (35%)
Query: 265 QHLKTIRGAVHSYTEGHYKPAFLTDQELKHLILQAAEGFLQNHSEIEK 312
+ ++ Y P L+ +ELK LI L+ ++
Sbjct: 4 KSPAELKSIFEKYAAKEGDPNQLSKEELKQLIQAEFPSLLKGPRTLDD 51
>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 = 28.3 bits (64), Expect = 3.3
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 170 ELLGQSWFDILHPKDVAKVKEQL 192
E+LG+S ++ D V+ QL
Sbjct: 56 EVLGRSIWEFDLMFDAEDVQTQL 78
>3v2d_2 50S ribosomal protein L29; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
1vsp_W 1vsa_W 2j03_2 2jl6_2 2jl8_2 2v47_2 2v49_2 2wdi_2
2wdj_2 2wdl_2 2wdn_2 2wh2_2 2wh4_2 2wrj_2 2wrl_2 2wro_2
2wrr_2 2x9s_2 2x9u_2 2xg0_2 ...
Length = 72
Score = 27.0 bits (60), Expect = 3.3
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 290 QELKHLILQAAEGFLQNHSEIEKRRRD--KMNTYITE 324
+EL L QA+ G L + +I +R ++ T + E
Sbjct: 30 RELMELRFQASIGQLSQNHKIRDLKRQIARLLTVLNE 66
>1nty_A Triple functional domain protein; DBL, pleckstrin, GEF, RHO,
GTPase, guanine-nucleotide releas factor,
phosphorylation, signaling protein; 1.70A {Homo sapiens}
SCOP: a.87.1.1 b.55.1.1 PDB: 2nz8_B 2kr9_A
Length = 311
Score = 29.0 bits (65), Expect = 3.6
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 164 DLSAQGELLGQSWFDILHPKDVAKVKEQ----LFS 194
++ +QGEL+ Q F + PK + + + LF
Sbjct: 196 NIESQGELILQESFQVWDPKTLIRKGRERHLFLFE 230
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase;
PEP-phosphotransferase, GAF domain, structura genomics,
PSI-2, protein structure initiative; HET: MSE P4G; 1.55A
{Acinetobacter SP}
Length = 171
Score = 28.4 bits (64), Expect = 3.8
Identities = 11/105 (10%), Positives = 31/105 (29%), Gaps = 12/105 (11%)
Query: 239 ELSAMVPMCHAMSRKLDKLTVLRMAVQHLKTIRGAVHSYTEGHYKPAFLTDQELKHLILQ 298
+L + + ++ + L + V + +L D+ + +L
Sbjct: 8 QLDTLRRIVQEINSSVSLHDSLDIMVNQVADAMKVDVCSI-------YLLDERNQRYLLM 60
Query: 299 AAEGFLQNHSEIEKRRRDKMNTYITELSAMVPTLLPVKTADIPAE 343
A++G + E +++ + L V +
Sbjct: 61 ASKGL---NPESVGHVSLQLSEGLVGLVGQ--REEIVNLENASKH 100
>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 = 29.2 bits (65), Expect = 4.9
Identities = 27/199 (13%), Positives = 54/199 (27%), Gaps = 67/199 (33%)
Query: 387 PSPGTGSCVKEEPDTTTGAAAS----CHRKKKQQQSDRKYSVIQC------TGYLK---- 432
P P G +EP T + + + V+ YL+
Sbjct: 42 PEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI 101
Query: 433 -SWAPAKMGLEESE-DRKYSVIQCTGYLKSWAPAKMGLEESEGEGEGGETCTLSCLVAVG 490
+ A + ++ + +I+ Y+ +
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKN--YITA------------------------------ 129
Query: 491 RVLADKTRILNKQVNLRPIQFLSRHALDGKFLFVYQFKNKGG-----TYVQ-LQSEWKNF 544
R++A + + + L R +G V F GG Y + L+ ++ +
Sbjct: 130 RIMA------KRPFDKKSNSALFRAVGEGNAQLVAIF---GGQGNTDDYFEELRDLYQTY 180
Query: 545 RNPWTKDIEYLISKNTLIL 563
D LI + L
Sbjct: 181 H-VLVGD---LIKFSAETL 195
Score = 29.2 bits (65), Expect = 5.0
Identities = 12/71 (16%), Positives = 24/71 (33%), Gaps = 23/71 (32%)
Query: 9 RLLSTTEEGPQDFLCLDEY-RP--LQDNVLSHSVYYDLQPVQRSTCSTSTYVEDGQIPSS 65
S T + L ++ +P ++ + + DL+ G IP+
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALT---LMEKAAFEDLK-------------SKGLIPAD 1756
Query: 66 SV---HPM-EY 72
+ H + EY
Sbjct: 1757 ATFAGHSLGEY 1767
>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 = 27.5 bits (62), Expect = 6.2
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 173 GQSWFDILHPKDVAKVKEQL 192
+ + +HP+D +K+ +
Sbjct: 56 PHDFLNGIHPEDRELMKDTM 75
>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 = 27.2 bits (61), Expect = 6.3
Identities = 5/19 (26%), Positives = 8/19 (42%)
Query: 174 QSWFDILHPKDVAKVKEQL 192
+ W +HP+D V
Sbjct: 38 EDWATRMHPEDQEWVVNFC 56
>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 = 28.4 bits (63), Expect = 7.4
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 6/44 (13%)
Query: 365 PASSSSSSSSNSAPSTQPGPNTPSPGTGSCVKEEPDTTTGAAAS 408
P S + + + + GP TP+P TG
Sbjct: 5 PTSPGTPGVAAATQAANGGPATPAPPALG------AAPTGDPKP 42
>3rhz_A GTF3, nucleotide sugar synthetase-like protein;
glycosyltransferase, transferase; HET: UDP; 1.90A
{Streptococcus parasanguinis} PDB: 3qkw_A*
Length = 339
Score = 28.1 bits (62), Expect = 8.9
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 223 SEIEKRRRDKMNTYITEL 240
SE E RR+ M YIT +
Sbjct: 1 SEFELRRQACMRVYITNI 18
Score = 28.1 bits (62), Expect = 8.9
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 308 SEIEKRRRDKMNTYITEL 325
SE E RR+ M YIT +
Sbjct: 1 SEFELRRQACMRVYITNI 18
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 0.128 0.372
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: 8,020,059
Number of extensions: 451315
Number of successful extensions: 775
Number of sequences better than 10.0: 1
Number of HSP's gapped: 759
Number of HSP's successfully gapped: 90
Length of query: 563
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 464
Effective length of database: 3,937,614
Effective search space: 1827052896
Effective search space used: 1827052896
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)