RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy6534
(309 letters)
>d1vola2 a.74.1.2 (A:208-316) Transcription factor IIB (TFIIB), core
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 109
Score = 131 bits (330), Expect = 5e-39
Identities = 89/109 (81%), Positives = 98/109 (89%)
Query: 201 LITTGDFMSRFCSNLSLPNMVQKAATHIARKAVELDIVPGRSPISVAAAAIYMASQASSD 260
LITTGDFMSRFCSNL LP VQ AATHIARKAVELD+VPGRSPISVAAAAIYMASQAS++
Sbjct: 1 LITTGDFMSRFCSNLCLPKQVQMAATHIARKAVELDLVPGRSPISVAAAAIYMASQASAE 60
Query: 261 KRSQKEIGDIAGVAEVTIRQSYKLMYPHASKLFPQDFVFHTPIHELPQL 309
KR+QKEIGDIAGVA+VTIRQSY+L+YP A LFP DF F TP+ +LPQL
Sbjct: 61 KRTQKEIGDIAGVADVTIRQSYRLIYPRAPDLFPTDFKFDTPVDKLPQL 109
Score = 89.1 bits (221), Expect = 6e-23
Identities = 18/83 (21%), Positives = 41/83 (49%)
Query: 114 INSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGVPRTFKEI 173
++ + L K + A ++ ++ + + GRS ++A+A +Y+A + RT KEI
Sbjct: 8 MSRFCSNLCLPKQVQMAATHIARKAVELDLVPGRSPISVAAAAIYMASQASAEKRTQKEI 67
Query: 174 CAVSKISKKEIGRCFKLILKALE 196
++ ++ I + ++LI
Sbjct: 68 GDIAGVADVTIRQSYRLIYPRAP 90
>d1vola1 a.74.1.2 (A:113-207) Transcription factor IIB (TFIIB), core
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 95
Score = 105 bits (262), Expect = 4e-29
Identities = 76/95 (80%), Positives = 87/95 (91%)
Query: 106 ALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEG 165
A++NA +EI +MADRINL + VDR NNLF+Q ++ K+LKGR+NDAIASACLYIACRQEG
Sbjct: 1 AMMNAFKEITTMADRINLPRNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEG 60
Query: 166 VPRTFKEICAVSKISKKEIGRCFKLILKALETSVD 200
VPRTFKEICAVS+ISKKEIGRCFKLILKALETSVD
Sbjct: 61 VPRTFKEICAVSRISKKEIGRCFKLILKALETSVD 95
Score = 77.7 bits (191), Expect = 9e-19
Identities = 18/80 (22%), Positives = 42/80 (52%)
Query: 206 DFMSRFCSNLSLPNMVQKAATHIARKAVELDIVPGRSPISVAAAAIYMASQASSDKRSQK 265
++ ++LP ++ R+A E + GR+ ++A+A +Y+A + R+ K
Sbjct: 7 KEITTMADRINLPRNKVDRTNNLFRQAYEQKSLKGRANDAIASACLYIACRQEGVPRTFK 66
Query: 266 EIGDIAGVAEVTIRQSYKLM 285
EI ++ +++ I + +KL+
Sbjct: 67 EICAVSRISKKEIGRCFKLI 86
>d1aisb1 a.74.1.2 (B:1108-1205) Transcription factor IIB (TFIIB),
core domain {Archaeon Pyrococcus woesei [TaxId: 2262]}
Length = 98
Score = 101 bits (253), Expect = 1e-27
Identities = 29/94 (30%), Positives = 56/94 (59%)
Query: 107 LLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGV 166
L A+ E++ + ++ L + + + A L+++ ++GRS +++ +AC+Y ACR V
Sbjct: 2 LAFALSELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKV 61
Query: 167 PRTFKEICAVSKISKKEIGRCFKLILKALETSVD 200
PRT EI ++++ KKEIGR ++ I + L +
Sbjct: 62 PRTLDEIADIARVDKKEIGRSYRFIARNLNLTPK 95
Score = 83.4 bits (206), Expect = 7e-21
Identities = 28/79 (35%), Positives = 43/79 (54%)
Query: 207 FMSRFCSNLSLPNMVQKAATHIARKAVELDIVPGRSPISVAAAAIYMASQASSDKRSQKE 266
+ R + L LP V++ A + R+AV ++ GRS SV AA +Y A + R+ E
Sbjct: 8 ELDRITAQLKLPRHVEEEAARLYREAVRKGLIRGRSIESVMAACVYAACRLLKVPRTLDE 67
Query: 267 IGDIAGVAEVTIRQSYKLM 285
I DIA V + I +SY+ +
Sbjct: 68 IADIARVDKKEIGRSYRFI 86
>d1aisb2 a.74.1.2 (B:1206-1300) Transcription factor IIB (TFIIB),
core domain {Archaeon Pyrococcus woesei [TaxId: 2262]}
Length = 95
Score = 96.4 bits (240), Expect = 6e-26
Identities = 30/89 (33%), Positives = 51/89 (57%)
Query: 206 DFMSRFCSNLSLPNMVQKAATHIARKAVELDIVPGRSPISVAAAAIYMASQASSDKRSQK 265
D++++F L L V++ A I +A + + G+SP + AAA+Y+AS +KR+Q+
Sbjct: 5 DYVNKFADELGLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQR 64
Query: 266 EIGDIAGVAEVTIRQSYKLMYPHASKLFP 294
E+ ++A V EVT+R YK + P
Sbjct: 65 EVAEVARVTEVTVRNRYKELVEKLKIKVP 93
Score = 88.3 bits (219), Expect = 8e-23
Identities = 22/88 (25%), Positives = 47/88 (53%)
Query: 114 INSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGVPRTFKEI 173
+N AD + L++ + RA + + + G+S + +A LYIA EG RT +E+
Sbjct: 7 VNKFADELGLSEKVRRRAIEILDEAYKRGLTSGKSPAGLVAAALYIASLLEGEKRTQREV 66
Query: 174 CAVSKISKKEIGRCFKLILKALETSVDL 201
V+++++ + +K +++ L+ V +
Sbjct: 67 AEVARVTEVTVRNRYKELVEKLKIKVPI 94
>d1dl6a_ g.41.3.1 (A:) Transcription initiation factor TFIIB,
N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 58
Score = 78.3 bits (193), Expect = 2e-19
Identities = 39/51 (76%), Positives = 43/51 (84%)
Query: 2 NINKVCCYEHPDAPLIEDYRAGDQICSECGLVVGDRVIDVGSEWRTFSNEK 52
+ +V C HPDA L+EDYRAGD IC ECGLVVGDRVIDVGSEWRTFSN+K
Sbjct: 8 ALPRVTCPNHPDAILVEDYRAGDMICPECGLVVGDRVIDVGSEWRTFSNDK 58
>d1pfta_ g.41.3.1 (A:) Transcription initiation factor TFIIB,
N-terminal domain {Archaeon Pyrococcus furiosus [TaxId:
2261]}
Length = 50
Score = 61.3 bits (149), Expect = 2e-13
Identities = 17/45 (37%), Positives = 26/45 (57%)
Query: 5 KVCCYEHPDAPLIEDYRAGDQICSECGLVVGDRVIDVGSEWRTFS 49
+ C A LI D G+ +C++CG V+ + +ID+G EWR F
Sbjct: 5 QKVCPACESAELIYDPERGEIVCAKCGYVIEENIIDMGPEWRAFD 49
>d1f5qb1 a.74.1.1 (B:6-146) Viral cyclin {Murine herpesvirus 68
[TaxId: 33708]}
Length = 141
Score = 45.3 bits (107), Expect = 1e-06
Identities = 13/106 (12%), Positives = 34/106 (32%), Gaps = 5/106 (4%)
Query: 98 RTMNSSDRALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACL 157
+ S R +L + + + + A L ++ + + + A+ L
Sbjct: 37 QHFTSQYRKVL--TTWMFCVCKDLRQDNNVFPLAVALLDELFLSTRIDRENYQSTAAVAL 94
Query: 158 YIACRQ-EGVPRTFKEICAVSK--ISKKEIGRCFKLILKALETSVD 200
+IA + +P ++ + + ++ L L D
Sbjct: 95 HIAGKVRAYMPIKATQLAYLCGGATTADKLLTLEVKSLDTLSWVAD 140
>d2ivxa1 a.74.1.1 (A:7-149) Cyclin-T2 {Human (Homo sapiens) [TaxId:
9606]}
Length = 143
Score = 40.8 bits (95), Expect = 3e-05
Identities = 16/105 (15%), Positives = 39/105 (37%), Gaps = 18/105 (17%)
Query: 110 AIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGVPRT 169
A I M R+N+++ ++ A + + + + + I+S L++A + E R
Sbjct: 34 AANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTALFLAAKVEEQARK 93
Query: 170 FKEICAVSKI------------------SKKEIGRCFKLILKALE 196
+ + V+ +E+ ++L+ L
Sbjct: 94 LEHVIKVAHACLHPLEPLLDTKCDAYLQQTRELVILETIMLQTLG 138
>d2r7ga2 a.74.1.3 (A:644-785) Retinoblastoma tumor suppressor
domains {Human (Homo sapiens) [TaxId: 9606]}
Length = 142
Score = 40.1 bits (94), Expect = 6e-05
Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 3/67 (4%)
Query: 110 AIREINSMADRINLT-KTIVDRANNLFKQV--HDGKNLKGRSNDAIASACLYIACRQEGV 166
A +N++ +R+ + LF+ ++ + ++ R D I +Y C+ + +
Sbjct: 15 AYLRLNTLCERLLSEHPELEHIIWTLFQHTLQNEYELMRDRHLDQIMMCSMYGICKVKNI 74
Query: 167 PRTFKEI 173
FK I
Sbjct: 75 DLKFKII 81
>d2i53a1 a.74.1.1 (A:14-157) Cyclin K {Human (Homo sapiens) [TaxId:
9606]}
Length = 144
Score = 40.0 bits (93), Expect = 7e-05
Identities = 16/100 (16%), Positives = 38/100 (38%), Gaps = 13/100 (13%)
Query: 110 AIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGVPRT 169
R I + R+ L + F + + + K + CL++A + E P+
Sbjct: 40 GARFIFDVGTRLGLHYDTLATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETPKK 99
Query: 170 FKEICAVSKI-------------SKKEIGRCFKLILKALE 196
K+I ++ K+E+ +++L+ ++
Sbjct: 100 CKDIIKTARSLLNDVQFGQFGDDPKEEVMVLERILLQTIK 139
>d1jkwa1 a.74.1.1 (A:11-161) Cyclin H (mcs2) {Human (Homo sapiens)
[TaxId: 9606]}
Length = 151
Score = 39.6 bits (92), Expect = 9e-05
Identities = 11/84 (13%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 120 RINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIASACLYIACRQEGVPRTFKEICAVSK- 178
+ + +++V A FK+ + ++ I C ++AC+ + + + +
Sbjct: 62 KPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRE 121
Query: 179 ------ISKKEIGRCFKLILKALE 196
+ ++I L+++ L
Sbjct: 122 SPLGQEKALEQILEYELLLIQQLN 145
>d1bu2a1 a.74.1.1 (A:22-148) Viral cyclin {Herpesvirus saimiri
[TaxId: 10381]}
Length = 127
Score = 38.3 bits (89), Expect = 2e-04
Identities = 20/109 (18%), Positives = 49/109 (44%), Gaps = 5/109 (4%)
Query: 91 MSKYQNRRTMNSSDRALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSND 150
S ++ + + +R +L + ++ + + L K++ + ++ + K ++
Sbjct: 17 TSLWEIQTEVTVDNRTIL--LTWMHLLCESFELDKSVFPLSVSILDRYLCKKQGTKKTLQ 74
Query: 151 AIASACLYIACRQEGV-PRTFKEICAVSK--ISKKEIGRCFKLILKALE 196
I +AC+ I + V P T ++ +S + E+ K IL+AL+
Sbjct: 75 KIGAACVLIGSKIRTVKPMTVSKLTYLSCDCFTNLELINQEKDILEALK 123
>d1g3nc1 a.74.1.1 (C:16-147) Viral cyclin {Kaposi's
sarcoma-associated herpesvirus [TaxId: 37296]}
Length = 132
Score = 38.4 bits (89), Expect = 2e-04
Identities = 24/105 (22%), Positives = 45/105 (42%), Gaps = 5/105 (4%)
Query: 95 QNRRTMNSSDRALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIAS 154
++++ S R LL + S+ NL +V A NL ++ K + S
Sbjct: 26 TFQQSLTSHMRKLL--GTWMFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEHFQKTGS 83
Query: 155 ACLYIACRQEGV-PRTFKEICAVS--KISKKEIGRCFKLILKALE 196
ACL +A + + P + +C + S++E+ K +L+ L
Sbjct: 84 ACLLVASKLRSLTPISTSSLCYAAADSFSRQELIDQEKELLEKLA 128
>d2cchb1 a.74.1.1 (B:181-308) Cyclin A {Cow (Bos taurus) [TaxId:
9913]}
Length = 128
Score = 37.2 bits (86), Expect = 5e-04
Identities = 19/105 (18%), Positives = 44/105 (41%), Gaps = 5/105 (4%)
Query: 95 QNRRTMNSSDRALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDAIAS 154
+ + + +S RA+L + + + + L + A N + ++ + +
Sbjct: 21 KKQPDITNSMRAIL--VDWLVEVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGKLQLVGT 78
Query: 155 ACLYIACRQEGV-PRTFKEICAVSK--ISKKEIGRCFKLILKALE 196
A + +A + E + P E ++ +KK++ R L+LK L
Sbjct: 79 AAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLT 123
>d1w98b2 a.74.1.1 (B:88-227) G1/S-specific cyclin-E1 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 140
Score = 36.1 bits (83), Expect = 0.001
Identities = 21/106 (19%), Positives = 42/106 (39%), Gaps = 6/106 (5%)
Query: 95 QNRRTMNSSDRALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGK-NLKGRSNDAIA 153
+ + RA+L + + + + L + A + F + + N+ I
Sbjct: 33 EQHPLLQPKMRAIL--LDWLMEVCEVYKLHRETFYLAQDFFDRYMATQENVVKTLLQLIG 90
Query: 154 SACLYIACRQEGV-PRTFKEICAVS--KISKKEIGRCFKLILKALE 196
+ L+IA + E + P + V+ S EI +I+KAL+
Sbjct: 91 ISSLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALK 136
>d2cchb2 a.74.1.1 (B:309-432) Cyclin A {Cow (Bos taurus) [TaxId:
9913]}
Length = 124
Score = 27.9 bits (62), Expect = 0.78
Identities = 12/86 (13%), Positives = 34/86 (39%), Gaps = 2/86 (2%)
Query: 203 TTGDFMSRFCSNLSLPNM-VQKAATHIARKA-VELDIVPGRSPISVAAAAIYMASQASSD 260
T F++++ + N V+ A + + ++ D P +A AA ++A +
Sbjct: 2 TVNQFLTQYFLHQQPANCKVESLAMFLGELSLIDADPYLKYLPSVIAGAAFHLALYTVTG 61
Query: 261 KRSQKEIGDIAGVAEVTIRQSYKLMY 286
+ + + G +++ ++
Sbjct: 62 QSWPESLIRKTGYTLESLKPCLMDLH 87
Score = 26.0 bits (57), Expect = 3.1
Identities = 5/44 (11%), Positives = 15/44 (34%)
Query: 152 IASACLYIACRQEGVPRTFKEICAVSKISKKEIGRCFKLILKAL 195
IA A ++A + + + + + + C + +
Sbjct: 47 IAGAAFHLALYTVTGQSWPESLIRKTGYTLESLKPCLMDLHQTY 90
>d1o5ia_ c.2.1.2 (A:) beta-keto acyl carrier protein reductase
{Thermotoga maritima [TaxId: 2336]}
Length = 234
Score = 27.7 bits (61), Expect = 1.5
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 220 MVQKAATHIARKAVELDIVPGR--SPISVAAAAIYMASQASS 259
V++ + +K VE I R P +A+ ++ S+ +S
Sbjct: 175 RVKELLSEEKKKQVESQIPMRRMAKPEEIASVVAFLCSEKAS 216
>d2ivxa2 a.74.1.1 (A:150-262) Cyclin-T2 {Human (Homo sapiens)
[TaxId: 9606]}
Length = 113
Score = 25.9 bits (57), Expect = 3.1
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 152 IASACLYIACRQEGVP 167
IA C+++AC+
Sbjct: 46 IACVCIHLACKWSNWE 61
>d1a6sa_ a.61.1.4 (A:) GAG polyprotein M-domain {Rous sarcoma virus
[TaxId: 11886]}
Length = 87
Score = 25.3 bits (55), Expect = 3.5
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 171 KEICAVSKISKKEIGRCFKLILK--ALETSVDLITTG 205
K C + SKKEIG L+ K L + DL + G
Sbjct: 13 KTYCGKTSPSKKEIGAMLSLLQKEGLLMSPSDLYSPG 49
>d1xq1a_ c.2.1.2 (A:) Tropinone reductase {Thale cress (Arabidopsis
thaliana) [TaxId: 3702]}
Length = 259
Score = 26.5 bits (58), Expect = 4.1
Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 219 NMVQKAATHIARKAVELDIVPGR--SPISVAAAAIYMASQASS 259
+ + +K V GR P V++ ++ A+S
Sbjct: 194 PLAEAVYDDEFKKVVISRKPLGRFGEPEEVSSLVAFLCMPAAS 236
>d1g31a_ b.35.1.1 (A:) GP31 co-chaperonin {Bacteriophage T4
[TaxId: 10665]}
Length = 107
Score = 24.8 bits (54), Expect = 6.1
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 10/34 (29%)
Query: 21 RAGDQICSECGLVVGDR----------VIDVGSE 44
+AGD+ +E GL++G R V VG +
Sbjct: 20 QAGDEEVTESGLIIGKRVQGEVPELCVVHSVGPD 53
>d1jkwa2 a.74.1.1 (A:162-287) Cyclin H (mcs2) {Human (Homo sapiens)
[TaxId: 9606]}
Length = 126
Score = 25.2 bits (55), Expect = 6.6
Identities = 7/84 (8%), Positives = 20/84 (23%), Gaps = 28/84 (33%)
Query: 105 RALLNAIREINSMADRINLTKTIVDRANNLFKQVHDGKNLKGRSNDA------------- 151
R + ++ + + + + A++ N
Sbjct: 4 RPFEGFLIDLKTRYPILENPEILRKTADDFL-------------NRIALTDAYLLYTPSQ 50
Query: 152 IASACLYIACRQEGV--PRTFKEI 173
IA + + + G+ E
Sbjct: 51 IALTAILSSASRAGITMESYLSES 74
>d1fmca_ c.2.1.2 (A:) 7-alpha-hydroxysteroid dehydrogenase
{Escherichia coli [TaxId: 562]}
Length = 255
Score = 25.8 bits (56), Expect = 6.7
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 219 NMVQKAATHIARKAVELDIVPGR--SPISVAAAAIYMASQASS 259
+ ++ T + + R P +A AA+++ S A+S
Sbjct: 195 DALKSVITPEIEQKMLQHTPIRRLGQPQDIANAALFLCSPAAS 237
>d2zkmx1 a.39.1.7 (X:142-311) Phospholipase C-beta-2 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 170
Score = 25.0 bits (54), Expect = 8.7
Identities = 6/25 (24%), Positives = 10/25 (40%)
Query: 178 KISKKEIGRCFKLILKALETSVDLI 202
KI K + F K +E ++
Sbjct: 23 KIPVKNFFQMFPADRKRVEAALSAC 47
>d1mnna_ b.2.5.7 (A:) DNA-binding domain from NDT80 {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 303
Score = 25.4 bits (55), Expect = 9.0
Identities = 11/59 (18%), Positives = 19/59 (32%)
Query: 185 GRCFKLILKALETSVDLITTGDFMSRFCSNLSLPNMVQKAATHIARKAVELDIVPGRSP 243
+ F L + G+ L+L N + ++ I+ GRSP
Sbjct: 238 NKHFSLHVILGAVVDPDTFHGENPGIPYDELALKNGSKGMFVYLQEMKTPPLIIRGRSP 296
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 0.134 0.392
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,114,275
Number of extensions: 50863
Number of successful extensions: 234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 41
Length of query: 309
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 224
Effective length of database: 1,240,546
Effective search space: 277882304
Effective search space used: 277882304
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 (21.8 bits)
S2: 53 (24.6 bits)