RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1861
(661 letters)
>d2vgls_ d.110.4.2 (S:) Sigma2 adaptin (clathrin coat assembly
protein AP17) {Mouse (Mus musculus) [TaxId: 10090]}
Length = 142
Score = 96.5 bits (240), Expect = 3e-24
Identities = 85/93 (91%), Positives = 90/93 (96%)
Query: 86 NFYKFRNFKIVYRRYAGLYFCICVDVNDNNLCYLEAIHNFVEVLNEYFHNVCELDLVFNF 145
NF +FRNFKI+YRRYAGLYFCICVDVNDNNL YLEAIHNFVEVLNEYFHNVCELDLVFNF
Sbjct: 48 NFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNF 107
Query: 146 YKVYTVVDEMFLAGEIRETSQTKVLKELRVLRS 178
YKVYTVVDEMFLAGEIRETSQTKVLK+L +L+S
Sbjct: 108 YKVYTVVDEMFLAGEIRETSQTKVLKQLLMLQS 140
Score = 88.8 bits (220), Expect = 2e-21
Identities = 85/88 (96%), Positives = 86/88 (97%)
Query: 2 NFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIVYRRYAGLYFCICVDVNDNNLCYL 61
FDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKI+YRRYAGLYFCICVDVNDNNL YL
Sbjct: 22 QFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYL 81
Query: 62 EAIHNFVEVLNEYFHNVCELDLVFNFYK 89
EAIHNFVEVLNEYFHNVCELDLVFNFYK
Sbjct: 82 EAIHNFVEVLNEYFHNVCELDLVFNFYK 109
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB),
core domain {Archaeon Pyrococcus woesei [TaxId: 2262]}
Length = 95
Score = 79.5 bits (196), Expect = 1e-18
Identities = 19/87 (21%), Positives = 39/87 (44%)
Query: 250 ISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGTSHLLIDF 309
++ ++L L++ + + A R LT G+ + AA +Y+ LEG +
Sbjct: 7 VNKFADELGLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREV 66
Query: 310 SELLQICIFELGRTYLRLSQALCISIP 336
+E+ ++ + Y L + L I +P
Sbjct: 67 AEVARVTEVTVRNRYKELVEKLKIKVP 93
Score = 41.7 bits (98), Expect = 2e-05
Identities = 20/97 (20%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 338 MDPCLYVLRYSNRLDFGAKTHEVTMTALRILQRMKKDMLHSGRRPNGLIG---KYSCD-- 392
+ P YV ++++ L +V A+ IL K L SG+ P GL+ +
Sbjct: 1 VKPTDYVNKFADELGLS---EKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLE 57
Query: 393 ----SHVDISRVAGDDYIKSNELPRVIKECLEDADLE 425
+ +++ VA + + KE +E ++
Sbjct: 58 GEKRTQREVAEVAR---VTEVTVRNRYKELVEKLKIK 91
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 109
Score = 76.8 bits (189), Expect = 1e-17
Identities = 16/88 (18%), Positives = 36/88 (40%)
Query: 250 ISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGTSHLLIDF 309
+S C+ L L + + ++ + A+ +L GR I V AA +YM + +
Sbjct: 8 MSRFCSNLCLPKQVQMAATHIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEI 67
Query: 310 SELLQICIFELGRTYLRLSQALCISIPS 337
++ + + ++Y + P+
Sbjct: 68 GDIAGVADVTIRQSYRLIYPRAPDLFPT 95
Score = 36.7 bits (85), Expect = 0.001
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 338 MDPCLYVLRYSNRLDFGAKTHEVTMTALRILQRMKKDMLHSGRRPNGLIG 387
+ ++ R+ + L +V M A I ++ + L GR P +
Sbjct: 2 ITTGDFMSRFCSNLCLP---KQVQMAATHIARKAVELDLVPGRSPISVAA 48
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB),
core domain {Archaeon Pyrococcus woesei [TaxId: 2262]}
Length = 98
Score = 75.7 bits (186), Expect = 2e-17
Identities = 26/91 (28%), Positives = 49/91 (53%)
Query: 248 RNISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGTSHLLI 307
+ + QL+L +H E + LY+ A+ + L +GR V AACVY CRL L
Sbjct: 7 SELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLD 66
Query: 308 DFSELLQICIFELGRTYLRLSQALCISIPSM 338
+ +++ ++ E+GR+Y +++ L ++ +
Sbjct: 67 EIADIARVDKKEIGRSYRFIARNLNLTPKKL 97
>d2vglm2 d.110.4.2 (M:1-141) Mu2 adaptin (clathrin coat assembly
protein AP50) {Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 141
Score = 76.9 bits (189), Expect = 2e-17
Identities = 16/88 (18%), Positives = 34/88 (38%), Gaps = 1/88 (1%)
Query: 86 NFYKFRNFKIVYRRYAGLYFCICVDVNDNNLCYLEAIHNFVEVLNEYFHNVCELDLVFNF 145
+ + + ++ N N E ++ +V+ YF + E ++ NF
Sbjct: 46 PVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNF 105
Query: 146 YKVYTVVDEMFLAGEIRETSQTKVLKEL 173
+Y ++DE+ G + + T LK
Sbjct: 106 VLIYELLDEILDFGYPQNSE-TGALKTF 132
Score = 64.1 bits (156), Expect = 6e-13
Identities = 13/89 (14%), Positives = 31/89 (34%), Gaps = 1/89 (1%)
Query: 2 NFDDDEKQKLIE-EVHAVVTVRDAKHTNFVEFRNFKIVYRRYAGLYFCICVDVNDNNLCY 60
+ DD + ++ V+ R + + + + ++ N N
Sbjct: 19 VYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMV 78
Query: 61 LEAIHNFVEVLNEYFHNVCELDLVFNFYK 89
E ++ +V+ YF + E ++ NF
Sbjct: 79 FEFLYKMCDVMAAYFGKISEENIKNNFVL 107
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 95
Score = 74.2 bits (182), Expect = 7e-17
Identities = 23/93 (24%), Positives = 51/93 (54%)
Query: 243 LDNCKRNISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGT 302
+ N + I+++ +++ L ++ ++ + NL++ A + KGR + +AC+Y+ CR EG
Sbjct: 2 MMNAFKEITTMADRINLPRNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEGV 61
Query: 303 SHLLIDFSELLQICIFELGRTYLRLSQALCISI 335
+ + +I E+GR + + +AL S+
Sbjct: 62 PRTFKEICAVSRISKKEIGRCFKLILKALETSV 94
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId:
9606]}
Length = 144
Score = 35.7 bits (82), Expect = 0.004
Identities = 11/71 (15%), Positives = 28/71 (39%)
Query: 250 ISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGTSHLLIDF 309
I + +L L+ L T + + K + + A C+++ ++E T D
Sbjct: 44 IFDVGTRLGLHYDTLATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDI 103
Query: 310 SELLQICIFEL 320
+ + + ++
Sbjct: 104 IKTARSLLNDV 114
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId:
9606]}
Length = 143
Score = 35.0 bits (80), Expect = 0.009
Identities = 7/68 (10%), Positives = 27/68 (39%)
Query: 250 ISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACVYMTCRLEGTSHLLIDF 309
I + +L ++Q + T+ + + ++ + +++ ++E + L
Sbjct: 38 IQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTALFLAAKVEEQARKLEHV 97
Query: 310 SELLQICI 317
++ C+
Sbjct: 98 IKVAHACL 105
>d1vk1a_ d.268.1.2 (A:) Hypothetical protein PF0380 {Pyrococcus
furiosus [TaxId: 2261]}
Length = 232
Score = 34.2 bits (78), Expect = 0.030
Identities = 23/150 (15%), Positives = 43/150 (28%), Gaps = 11/150 (7%)
Query: 466 DIDDEEINSYILTEGEATNKAKLWEVLNREYLT-----LQAERKAREEVEGKKEKKKRKP 520
D DE + Y + K+ E L E L E+ + E+ +K
Sbjct: 81 DYFDEGVKVYTWYPAFKGDVNKVIERLKAEGLEVIEDEKAEEKAEKGEIAFALIGEKSFA 140
Query: 521 KANKATSVAKTAGEAIEKMLKEKKISTKINYDVLKSLDFTVDVNTGEMSTEQKSAPRIIE 580
K + +++M + K+I + + + +
Sbjct: 141 IPGGLEEQ-KKVSKVLDEMDQAKEIELVYYGLKEDAKADMEKGEIDYVFIRKAPTKEEVM 199
Query: 581 NLEITSSIKKTRAKPTKEKREPTPKTPPKV 610
L +K+ K R P P K+
Sbjct: 200 EL-----VKRGEVFSPKTTRHVLPFIPDKI 224
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's
sarcoma-associated herpesvirus [TaxId: 37296]}
Length = 132
Score = 31.4 bits (71), Expect = 0.13
Identities = 12/83 (14%), Positives = 26/83 (31%), Gaps = 6/83 (7%)
Query: 234 LNRESREITLDNCKRNISSLCNQLRLNQHCLETSFNLYKMALSRNLTKGRRQILVCAACV 293
L R++ + S+C + L + + + NL L +AC+
Sbjct: 31 LTSHMRKLLGTW----MFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEHFQKTGSACL 86
Query: 294 YMTCRLEGTSHLLIDFSELLQIC 316
+ +L + + L
Sbjct: 87 LVASKLRSLTPISTS--SLCYAA 107
>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus
thermophilus [TaxId: 274]}
Length = 86
Score = 27.8 bits (62), Expect = 1.2
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 5/39 (12%)
Query: 514 EKKKRKPKANKATSVAKTAGEAIEKMLKEKKISTKINYD 552
K + K A V G A+ + I ++ +D
Sbjct: 33 ALKLKGNKTEVARQV----GRALAEKALALGI-KQVAFD 66
>d1q1va_ a.159.4.1 (A:) DEK C-terminal domain {Human (Homo sapiens)
[TaxId: 9606]}
Length = 70
Score = 25.8 bits (57), Expect = 4.3
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 410 ELPRVIKECLEDADLEEETEGEIR 433
EL IK+ L A+LEE T +I
Sbjct: 16 ELKETIKKLLASANLEEVTMKQIC 39
>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus
stearothermophilus [TaxId: 1422]}
Length = 97
Score = 26.4 bits (58), Expect = 4.5
Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 1/57 (1%)
Query: 496 YLTLQAERKAREEVEGKKEKKKRKPKANKATSVAKTAGEAIEKMLKEKKISTKINYD 552
Y + + K+ V K+ + AK GE + K EK I ++ +D
Sbjct: 18 YAQIIDDTKSATIVSASTLDKEFGLDSTNNIEAAKKVGELVAKRALEKGI-KQVVFD 73
>d1xnxa_ a.123.1.1 (A:) Orphan nuclear receptor NR1I3 (CAR) {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 232
Score = 26.9 bits (59), Expect = 7.2
Identities = 13/85 (15%), Positives = 26/85 (30%), Gaps = 1/85 (1%)
Query: 292 CVYMTCRLEGTSHLLIDFS-ELLQICIFELGRTYLRLSQALCISIPSMDPCLYVLRYSNR 350
+ T L L ++ LL+ E+ L + L P Y + +
Sbjct: 69 IIKFTKDLPLFRSLTMEDQISLLKGAAVEILHISLNTTFCLQTENFFCGPLCYKMEDAVH 128
Query: 351 LDFGAKTHEVTMTALRILQRMKKDM 375
F + E + + L+ +
Sbjct: 129 AGFQYEFLESILHFHKNLKGLHLQE 153
>d1xvpb_ a.123.1.1 (B:) Orphan nuclear receptor NR1I3 (CAR) {Human
(Homo sapiens) [TaxId: 9606]}
Length = 246
Score = 27.0 bits (59), Expect = 8.0
Identities = 15/85 (17%), Positives = 28/85 (32%), Gaps = 1/85 (1%)
Query: 292 CVYMTCRLEGTSHLLIDFSE-LLQICIFELGRTYLRLSQALCISIPSMDPCLYVLRYSNR 350
+ T L L I+ LL+ E+ L + L P Y + R
Sbjct: 70 VIKFTKDLPVFRSLPIEDQISLLKGAAVEICHIVLNTTFCLQTQNFLCGPLRYTIEDGAR 129
Query: 351 LDFGAKTHEVTMTALRILQRMKKDM 375
+ F + E+ L++++
Sbjct: 130 VGFQVEFLELLFHFHGTLRKLQLQE 154
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.319 0.136 0.397
Gapped
Lambda K H
0.267 0.0594 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,465,955
Number of extensions: 121681
Number of successful extensions: 319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 318
Number of HSP's successfully gapped: 21
Length of query: 661
Length of database: 2,407,596
Length adjustment: 91
Effective length of query: 570
Effective length of database: 1,158,166
Effective search space: 660154620
Effective search space used: 660154620
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.6 bits)