RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17187
(123 letters)
>1f5q_B Gamma herpesvirus cyclin; herpesviral cyclin, cyclin dependent
kinase. protein/protein complex, transferase; 2.50A
{Murid herpesvirus 4} SCOP: a.74.1.1 a.74.1.1
Length = 252
Score = 84.5 bits (209), Expect = 2e-21
Identities = 20/79 (25%), Positives = 35/79 (44%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+ +C++ + VFP AV+++D +++ Q TA+ L IA K+R +
Sbjct: 56 MFCVCKDLRQDNNVFPLAVALLDELFLSTRIDRENYQSTAAVALHIAGKVRAYMPIKATQ 115
Query: 78 LVYYSDYTFSPHTLKTTEK 96
L Y + L T E
Sbjct: 116 LAYLCGGATTADKLLTLEV 134
>1g3n_C V-cyclin; cyclin-dependent kinase, INK4 inhibitor, viral cyclin,
cell cycle, signaling protein; 2.90A {Human herpesvirus
8} SCOP: a.74.1.1 a.74.1.1
Length = 257
Score = 84.4 bits (209), Expect = 3e-21
Identities = 27/79 (34%), Positives = 41/79 (51%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+ +C+E + E V A++++DR L + K Q T SACLL+ASK+R +
Sbjct: 58 MFSVCQEYNLEPNVVALALNLLDRLLLIKQVSKEHFQKTGSACLLVASKLRSLTPISTSS 117
Query: 78 LVYYSDYTFSPHTLKTTEK 96
L Y + +FS L EK
Sbjct: 118 LCYAAADSFSRQELIDQEK 136
>3g33_B CCND3 protein; Ser/Thr protein kinase, cell cycle, phosphorylation,
ATP-BIN cell division, disease mutation, kinase; 3.00A
{Homo sapiens}
Length = 306
Score = 84.8 bits (210), Expect = 4e-21
Identities = 35/79 (44%), Positives = 53/79 (67%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+L++CEE+ CE +VFP A++ +DR+L P K+QLQL + C+L+ASK+RE L +E
Sbjct: 78 MLEVCEEQRCEEEVFPLAMNYLDRYLSCVPTRKAQLQLLGAVCMLLASKLRETTPLTIEK 137
Query: 78 LVYYSDYTFSPHTLKTTEK 96
L Y+D+ SP L+ E
Sbjct: 138 LCIYTDHAVSPRQLRDWEV 156
>2w96_A G1/S-specific cyclin-D1; serine/threonine-protein kinase,
chromosomal rearrangement, ATP-binding, transferase,
polymorphism, cell division; 2.30A {Homo sapiens} PDB:
2w99_A 2w9f_A 2w9z_A
Length = 271
Score = 84.4 bits (209), Expect = 4e-21
Identities = 33/79 (41%), Positives = 51/79 (64%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+L++CEE+ CE +VFP A++ +DRFL P++KS+LQL + C+ +ASK++E L E
Sbjct: 64 MLEVCEEQKCEEEVFPLAMNYLDRFLSLEPVKKSRLQLLGATCMFVASKMKETIPLTAEK 123
Query: 78 LVYYSDYTFSPHTLKTTEK 96
L Y+D + P L E
Sbjct: 124 LCIYTDNSIRPEELLQMEL 142
>2f2c_A Cyclin homolog, V-cyclin; small molecule inhibitor bound between
N-terminal and C-TERM domain of kinase, cell
cycle-transferase complex; HET: AP9; 2.80A {Herpesvirus
saimiri} SCOP: a.74.1.1 a.74.1.1 PDB: 1jow_A* 2euf_A*
1xo2_A* 1bu2_A
Length = 254
Score = 82.0 bits (203), Expect = 2e-20
Identities = 32/79 (40%), Positives = 41/79 (51%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+ LCE + VFP +VSI+DR+LC K LQ +AC+LI SKIR + V
Sbjct: 59 MHLLCESFELDKSVFPLSVSILDRYLCKKQGTKKTLQKIGAACVLIGSKIRTVKPMTVSK 118
Query: 78 LVYYSDYTFSPHTLKTTEK 96
L Y S F+ L EK
Sbjct: 119 LTYLSCDCFTNLELINQEK 137
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET:
TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Length = 283
Score = 70.9 bits (174), Expect = 5e-16
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 1/80 (1%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCP-MEKSQLQLTASACLLIASKIRECHALCVE 76
L+++CE + F A DR++ + K+ LQL + L IA+K+ E + +
Sbjct: 57 LMEVCEVYKLHRETFYLAQDFFDRYMATQENVVKTLLQLIGISSLFIAAKLEEIYPPKLH 116
Query: 77 DLVYYSDYTFSPHTLKTTEK 96
Y +D S + T E
Sbjct: 117 QFAYVTDGACSGDEILTMEL 136
Score = 28.9 bits (65), Expect = 0.32
Identities = 15/81 (18%), Positives = 27/81 (33%), Gaps = 7/81 (8%)
Query: 10 TNVFL--YSSLLQLCEERHCEYQVFPYAVSIMDRFLC-YCPMEKSQLQLTASACLLIASK 66
+L Y + L + +P + I L C ++ L+ +L AS
Sbjct: 151 IVSWLNVYMQVAYLNDLHEVLLPQYPQQIFIQIAELLDLCVLDVDCLEFPYG--ILAASA 208
Query: 67 IRECHALCVEDLVYYSDYTFS 87
+ H E + S Y +
Sbjct: 209 L--YHFSSSELMQKVSGYQWC 227
>2cch_B Cyclin A2, cyclin-A; complex(transferase/cell division),
ATP-binding, CDK2, cell cycle, cyclin, mitosis, nuclear
protein; HET: TPO ATP; 1.7A {Homo sapiens} SCOP:
a.74.1.1 a.74.1.1 PDB: 1fvv_B* 1jsu_B* 1okv_B 1okw_B*
1ol1_B* 1ol2_B* 1urc_B 1fin_B* 2c5p_B* 2c5o_B* 2i40_B*
2wev_B* 2wfy_B 2whb_B* 3eid_B* 3ej1_B* 3eoc_B* 2wha_B*
2x1n_B* 1vyw_B* ...
Length = 260
Score = 63.9 bits (156), Expect = 1e-13
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 4/77 (5%)
Query: 24 ERHCEYQVFP----YAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLV 79
E EY++ AV+ +DRFL + + +LQL +A +L+ASK E + V + V
Sbjct: 48 EVGEEYKLQNETLHLAVNYIDRFLSSMSVLRGKLQLVGTAAMLLASKFEEIYPPEVAEFV 107
Query: 80 YYSDYTFSPHTLKTTEK 96
Y +D T++ + E
Sbjct: 108 YITDDTYTKKQVLRMEH 124
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B*
Length = 269
Score = 63.5 bits (155), Expect = 2e-13
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 4/77 (5%)
Query: 24 ERHCEYQVFP----YAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVEDLV 79
+ ++++ VSI+DRF+ + K LQL + IASK E + + D
Sbjct: 47 QVQMKFRLLQETMYMTVSIIDRFMQNNSVPKKMLQLVGVTAMFIASKYEEMYPPEIGDFA 106
Query: 80 YYSDYTFSPHTLKTTEK 96
+ +D T++ H ++ E
Sbjct: 107 FVTDNTYTKHQIRQMEM 123
>1jkw_A Cyclin H; cell cycle, cell division, nuclear protein; 2.60A {Homo
sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 1kxu_A
Length = 323
Score = 36.2 bits (83), Expect = 0.001
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 2/56 (3%)
Query: 18 LLQLCEERHCE--YQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECH 71
LL+ C V A RF + + ++ C +A K+ E +
Sbjct: 64 LLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFN 119
>2pk2_A Cyclin-T1, protein TAT; TAR, twinning, transcription regulation P-
TEFB, cell cycle; 2.67A {Homo sapiens} SCOP: a.74.1.1
a.74.1.1 PDB: 2w2h_C
Length = 358
Score = 35.2 bits (80), Expect = 0.002
Identities = 17/99 (17%), Positives = 33/99 (33%), Gaps = 2/99 (2%)
Query: 12 VFLYSSLLQ-LCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIREC 70
++LLQ + + + A+ M RF + A A L +A+K+ E
Sbjct: 38 RQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTRFPGNSVAPAALFLAAKVEEQ 97
Query: 71 HALCVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTHVIMK 109
E ++ + P + YL ++
Sbjct: 98 PKKL-EHVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI 135
>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 = 33.7 bits (76), Expect = 0.009
Identities = 28/152 (18%), Positives = 43/152 (28%), Gaps = 59/152 (38%)
Query: 16 SSLLQL--CEERHCEYQ---VFPYAVSIMDRFLC--------YCPME-------KS---- 51
SSL L E R + VFP + I L M S
Sbjct: 361 SSLNVLEPAEYRKM-FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 52 ------------QLQLTASACLLIA--SKIRECH----ALCVEDLV------YYSDYTFS 87
L+L A I + + +DL+ Y+ Y+
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYF--YSHI 477
Query: 88 PHTLKTTEK-------PAVYLNNTHVIMKKVK 112
H LK E V+L + + +K++
Sbjct: 478 GHHLKNIEHPERMTLFRMVFL-DFRFLEQKIR 508
Score = 30.6 bits (68), Expect = 0.10
Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 15/67 (22%)
Query: 63 IASKIR-ECHALC--------VEDLVYYSDYTFSPHTLKTTEKPAVYLN-----NTHVIM 108
+ KIR + A ++ L +Y Y + K L+ ++I
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFYKPY-ICDNDPKYERLVNAILDFLPKIEENLIC 561
Query: 109 KKVKDLV 115
K DL+
Sbjct: 562 SKYTDLL 568
>2i53_A Cyclin K; cell cycle, transcription, cyclin BOX, CDK9, positive
transcription elongation factor, P-TEFB; 1.50A {Homo
sapiens} SCOP: a.74.1.1 a.74.1.1
Length = 258
Score = 33.0 bits (75), Expect = 0.014
Identities = 9/54 (16%), Positives = 19/54 (35%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECH 71
+ + Y + RF + ++ +T + CL +A K+ E
Sbjct: 48 IFDVGTRLGLHYDTLATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETP 101
>2ivx_A Cyclin-T2; transcription regulation, cell division,
phosphorylation, NU protein, cell cycle, transcription;
1.8A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1 PDB: 2w2h_A
3mi9_B* 3mia_B* 3tnh_B* 3tni_B* 3blh_B* 3blq_B* 3blr_B*
3lq5_B* 3my1_B* 3tn8_B*
Length = 257
Score = 32.0 bits (72), Expect = 0.026
Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 2/99 (2%)
Query: 12 VFLYSSLLQ-LCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIREC 70
++L+Q + + + A+ M RF + K + +S L +A+K+ E
Sbjct: 31 RQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTALFLAAKVEEQ 90
Query: 71 HALCVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTHVIMK 109
E ++ + P K YL T ++
Sbjct: 91 ARKL-EHVIKVAHACLHPLEPLLDTKCDAYLQQTRELVI 128
>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 = 31.9 bits (72), Expect = 0.037
Identities = 11/84 (13%), Positives = 25/84 (29%), Gaps = 22/84 (26%)
Query: 18 LLQLCEERHCEYQVFPYAVSIM-----------DRFLCYCPMEKSQLQLTASACLLIASK 66
L +L +VF ++I+ +L P+ + + A ++ +K
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAK 254
Query: 67 IRECH-----------ALCVEDLV 79
+ + LV
Sbjct: 255 LLGFTPGELRSYLKGATGHSQGLV 278
Score = 29.2 bits (65), Expect = 0.37
Identities = 22/124 (17%), Positives = 35/124 (28%), Gaps = 30/124 (24%)
Query: 4 FAISIQTNVFLYSSLLQLCEERHCEYQVFPYAVSIMD-----------RFLCYCPMEKSQ 52
+ + T F +S LQ E+ + P D +FL Y
Sbjct: 18 HVLLVPTASFFIASQLQ---EQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 53 LQLTA-SACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTHVIMKKV 111
++ L + E L D+ H L A L + K
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDI----------HALA-----AKLLQENDTTLVKT 119
Query: 112 KDLV 115
K+L+
Sbjct: 120 KELI 123
>3rgf_B Cyclin-C; protein kinase complex, transferase,transcription; HET:
BAX; 2.20A {Homo sapiens}
Length = 285
Score = 30.0 bits (67), Expect = 0.16
Identities = 15/64 (23%), Positives = 23/64 (35%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKSQLQLTASACLLIASKIRECHALCVED 77
+ L E QV A RF ++ L A C+ +ASK+ E +
Sbjct: 50 IQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTR 109
Query: 78 LVYY 81
L+
Sbjct: 110 LIAA 113
>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 = 27.6 bits (60), Expect = 0.76
Identities = 11/57 (19%), Positives = 18/57 (31%), Gaps = 30/57 (52%)
Query: 49 EKSQLQ-LTASACLLIASKIRECHALCVEDLVYYSDYTFSPHTLKTTEKPAVYLNNT 104
EK L+ L AS L K+ ++ + PA+ + T
Sbjct: 18 EKQALKKLQAS---L---KL------------------YADDS-----APALAIKAT 45
>1rxt_A Myristoyl-, glycylpeptide N-tetradecanoyltransferase 1; alpha-beta
structure, unique N-myristoyltransferase fold; 3.00A
{Homo sapiens} SCOP: d.108.1.2 d.108.1.2
Length = 496
Score = 25.1 bits (54), Expect = 8.8
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 74 CVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTH--VIMKKVKDLVGT 117
VED + +SP L +P +L H V + + LVG
Sbjct: 180 YVEDDDNMFRFDYSPEFLLWALRPPGWLPQWHCGVRVVSSRKLVGF 225
>2cfx_A HTH-type transcriptional regulator LRPC; transcriptional
regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis}
SCOP: a.4.5.32 d.58.4.2
Length = 144
Score = 24.4 bits (54), Expect = 9.4
Identities = 9/57 (15%), Positives = 15/57 (26%), Gaps = 18/57 (31%)
Query: 67 IRECHAL----------CVEDLVYYSDYTFSPHTLKTTEKPAVYLNNTHVIMKKVKD 113
I C+ + E L D+ + THVI ++
Sbjct: 91 IEFCYRIAGAACYMLKINAESLEAVEDFI--------NKTSPYAQTVTHVIFSEIDT 139
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat
domains, transcription-cell cycle complex; 3.00A
{Schizosaccharomyces pombe}
Length = 235
Score = 24.6 bits (53), Expect = 9.9
Identities = 10/55 (18%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 18 LLQLCEERHCEYQVFPYAVSIMDRFLCYCPMEKS-QLQLTASACLLIASKIRECH 71
+ + +V A+ ++ R++ EK L+ + C+ ++ K+ EC
Sbjct: 35 VQTFGDRLRLRQRVLATAIVLLRRYMLKKNEEKGFSLEALVATCIYLSCKVEECP 89
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
0.326 0.133 0.402
Gapped
Lambda K H
0.267 0.0530 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,696,975
Number of extensions: 82263
Number of successful extensions: 212
Number of sequences better than 10.0: 1
Number of HSP's gapped: 211
Number of HSP's successfully gapped: 25
Length of query: 123
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 41
Effective length of database: 4,412,271
Effective search space: 180903111
Effective search space used: 180903111
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (23.9 bits)