RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16565
(377 letters)
>2pmi_B PHO85 cyclin PHO80, aminoglycoside anti; cyclin-dependent kinase,
signaling protein,transfera cycle complex; HET: MES AGS;
2.90A {Saccharomyces cerevisiae} PDB: 2pk9_B*
Length = 293
Score = 100 bits (248), Expect = 4e-24
Identities = 29/159 (18%), Positives = 58/159 (36%), Gaps = 4/159 (2%)
Query: 168 IYKFIRTLFNAAQLTAECAIITLVYLERLL-TYAEVDITPGNWKRIVLGAILLASKVWDD 226
I+ + L + L + +L Y++ L Y + + R +L A +A+K D
Sbjct: 77 IFNYFIRLTKFSSLEHCVLMTSLYYIDLLQTVYPDFTLNSLTAHRFLLTATTVATKGLCD 136
Query: 227 QAVWNVDYCQILKDISVEDMNELERQFLEMLQFNINVPSSVYAKYYFDLRSLAESND--L 284
N Y ++ + ++N LE FL+ + + I + + D
Sbjct: 137 SFSTNAHYAKV-GGVRCHELNILENDFLKRVNYRIIPRDHNITLCSIEQKQKKFVIDKNA 195
Query: 285 TFPAEPLSKERAQKLEAMSIVYAKYYFDLRSLAESNDLT 323
+ S + ++ V KYY + L S + +
Sbjct: 196 LGSLDLDSYSYVNRPKSGYNVLDKYYRRIVQLVGSFNAS 234
>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 = 65.5 bits (159), Expect = 1e-11
Identities = 77/484 (15%), Positives = 141/484 (29%), Gaps = 178/484 (36%)
Query: 8 CSYSTPTTQRKVHSKSSR----FEEYVPEGEESVGN--------------LQHISEREPE 49
PT +S+ F + +PE E L ++S
Sbjct: 18 HVLLVPTAS---FFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSL--- 71
Query: 50 DWETDPSLHPKAGTIFLE--RSKLEQLVRVYQYNKNFSH-IAA------DNRPLKKSSSC 100
+ P F + L + Y + H +AA D +K
Sbjct: 72 -------VEPSKVGQFDQVLNLCLTEFENCYLEGNDI-HALAAKLLQENDTTLVKTKELI 123
Query: 101 STIYLDDSTVSQPNLKNTVKCSAL--------AIYYYIKNG--NSYKYL----EIFD--- 143
+P K + SAL A I G N+ Y +++
Sbjct: 124 KNYITARIMAKRPFDKKSN--SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181
Query: 144 -----------EKLHPLTRDPVPEDYDRYPPEHRQIYKFIRT---------LFNAAQLTA 183
E L L R D ++ + I +++ L +
Sbjct: 182 VLVGDLIKFSAETLSELIRTT--LDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP---I 236
Query: 184 ECAIITLVYLERLLTYAEV-DITPGNWKRIVLG----------AILLA-SKVWDD---QA 228
C +I ++ L + A++ TPG + + G A+ +A + W+
Sbjct: 237 SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSV 296
Query: 229 VWNVDY-------CQ-----------ILKDISVED-------M---NELERQFLEML--Q 258
+ C IL+D S+E+ M + L ++ ++ +
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILED-SLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 259 FNINVPSS--VYAKYYFDLRSLAESND---LTFPAEPLSKERAQKLEAMSIVYAKYYFDL 313
N ++P+ V SL ++ P P S L +++ L
Sbjct: 356 TNSHLPAGKQVEI-------SLVNGAKNLVVSGP--PQS------LYGLNL-------TL 393
Query: 314 RSLAESNDLTFPAEPLSKERAQKL-----------------EAMSRIMEDKMLRNNIKKW 356
R + L P S ER K A I +D +++NN+ +
Sbjct: 394 RKAKAPSGLDQSRIPFS-ERKLKFSNRFLPVASPFHSHLLVPASDLINKD-LVKNNV-SF 450
Query: 357 SSLD 360
++ D
Sbjct: 451 NAKD 454
Score = 35.0 bits (80), Expect = 0.050
Identities = 19/125 (15%), Positives = 42/125 (33%), Gaps = 26/125 (20%)
Query: 257 LQFNINVPSSVYAKYYFDLRSLAESNDLTFPAEPLSKERAQKLEAMSIV--YAKYYFDLR 314
L+ + VP++ + L+ E + P EP ++ A E + K+
Sbjct: 16 LEHVLLVPTASFF-IASQLQ---EQFNKILP-EP-TEGFAADDEPTTPAELVGKF----- 64
Query: 315 SLAESNDLTFPAEPLSKERAQKLEAMSRIM----EDKMLR-NNIKKW-SSLDNVNFANQG 368
L + + + + + + + + E+ L N+I + L N
Sbjct: 65 -------LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 369 SRKSI 373
K +
Sbjct: 118 KTKEL 122
Score = 28.1 bits (62), Expect = 6.6
Identities = 17/94 (18%), Positives = 27/94 (28%), Gaps = 47/94 (50%)
Query: 12 TPTTQRKV-------------HSK-----SSRFEEYVPEGEES---------V-----G- 38
P ++RK+ HS S + + + S V G
Sbjct: 407 IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Query: 39 NLQHISE-----------REPEDWET---DPSLH 58
+L+ +S R P WET + H
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500
>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 = 52.9 bits (126), Expect = 1e-07
Identities = 71/443 (16%), Positives = 136/443 (30%), Gaps = 111/443 (25%)
Query: 4 KTSCCSYSTPTT----QR-KVHSKSSRFEEY-VPEGEESVGNLQ-HISEREPEDWETDPS 56
KT S T QR ++++ + F +Y V + L+ + E P
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR-LQPYLKLRQALLELRPAKNVL--- 154
Query: 57 LHPKAGT----------------------IF--------LERSKLEQLVRVYQYNKNFSH 86
+ G+ IF + LE L + +
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML-------QKLLY 207
Query: 87 IAADNRPLKKSSSCSTIYLDDSTVSQPN--LKNTVKCSALAIYYYIKNGNSYKYLEIFDE 144
N + S + S ++ LK+ + L + + N + K F+
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV---LLNVQNAKAWNAFNL 264
Query: 145 KLHPL--TRDP-VPEDYDRYPPEHRQIYKFIRTL--FNAAQLTAECAIITLVYLERLLTY 199
L TR V + H + TL L + L R +
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV-- 322
Query: 200 AEVDITPGNWKRIVLGAILLASKVWDDQAVWN----VDYCQILK--DISVE--DMNELER 251
+ P L ++A + D A W+ V+ ++ + S+ + E +
Sbjct: 323 --LTTNP-----RRLS--IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 252 QF--LEMLQFNINVPSSVYAKYYFDL--------------RSLAE--SNDLTFPAEPLSK 293
F L + + ++P+ + + +FD+ SL E + T +
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL 433
Query: 294 ERAQKLEAMSIVYAK---YYFDLRSLAESNDLTFPAEP----------LSK-ERAQKLEA 339
E KLE ++ +Y ++ +S+DL P L E +++
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTF-DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Query: 340 MSRIMED-KMLRNNIKKWSSLDN 361
+ D + L I+ S+ N
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWN 515
Score = 46.4 bits (109), Expect = 1e-05
Identities = 49/394 (12%), Positives = 103/394 (26%), Gaps = 129/394 (32%)
Query: 70 KLEQLVRVYQ--YNKNF--SHIAADNRPLKKSSSCSTIYLDDSTVSQPNL---------K 116
+ + ++ V++ + NF + + + I + VS +
Sbjct: 17 QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE 76
Query: 117 NTVKC---SALAI-YYYIKNGNSYKYLE-IFDEKLHPLTRDPVPEDYDRYPPEHRQIYKF 171
V+ L I Y ++ + + + +++ RD + D + + +
Sbjct: 77 EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136
Query: 172 IRTLFNAAQLTAECAIITLVYLERLLTYAEVDITPGNWKRIVL------GAILLASKVWD 225
L A L L P +++ G +A V
Sbjct: 137 YLKLRQA--------------LLEL--------RPAKN--VLIDGVLGSGKTWVALDVCL 172
Query: 226 DQAV---------W-NVDYCQILKDISVEDMNELERQFLEMLQFNINVPSSV-------- 267
V W N+ C + + +E + +L Q + S++
Sbjct: 173 SYKVQCKMDFKIFWLNLKNCNSPETV-LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231
Query: 268 --------YAKY-----------------YFDLR----------SLAESNDLTFPAEPLS 292
Y F+L + +
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291
Query: 293 KERAQKL---EAMSIVYAKY----YFDLRSLAESNDLTFPAEPLSKERAQKLEAMSRIME 345
+ L E S+ KY DL + + P +S I E
Sbjct: 292 DHHSMTLTPDEVKSL-LLKYLDCRPQDLPREVLTTN------PR---------RLSIIAE 335
Query: 346 DKMLRNNIKKWSSLDNVNFANQGS--RKSIAILS 377
+R+ + W + +VN + S+ +L
Sbjct: 336 --SIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Score = 42.1 bits (98), Expect = 3e-04
Identities = 29/175 (16%), Positives = 56/175 (32%), Gaps = 45/175 (25%)
Query: 134 NSYKYLEIFDEKLHPLTRDPVPEDYDRYPPEHRQIYKFIRTLFNAAQLTAECAIITLVYL 193
+ Y + FD + D +P D+Y Y I + + +V+L
Sbjct: 451 DHYNIPKTFD------SDDLIPPYLDQY------FYSHIGHHLKNIEHPERMTLFRMVFL 498
Query: 194 ERLLTYAEVDITPGNWKRIVLGAILLASKVWDDQAVWNV--DYCQILKDIS------VED 245
D + L K+ D WN L+ + ++
Sbjct: 499 ---------DF---RF---------LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN 537
Query: 246 MNELERQFLEMLQFNINVPSSVYAKYYFDLRSLAESNDLTFPAEPLSKERAQKLE 300
+ ER +L F + ++ Y DL +A L E + +E ++++
Sbjct: 538 DPKYERLVNAILDFLPKIEENLICSKYTDLLRIA----LMAEDEAIFEEAHKQVQ 588
>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 = 33.8 bits (76), Expect = 0.033
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 12/37 (32%)
Query: 90 DNRPLKKSSSCSTIYLDDSTVSQPNLKNTVKCSALAI 126
+ + LKK + +Y DDS P ALAI
Sbjct: 18 EKQALKKLQASLKLYADDSA---P---------ALAI 42
Score = 27.6 bits (60), Expect = 4.2
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 12/30 (40%)
Query: 67 ERS---KLEQLVRVYQYNKNFSHIAADNRP 93
E+ KL+ +++Y A D+ P
Sbjct: 18 EKQALKKLQASLKLY---------ADDSAP 38
>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 = 33.9 bits (78), Expect = 0.061
Identities = 15/111 (13%), Positives = 42/111 (37%), Gaps = 11/111 (9%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
++ +A+K+ + + + S +++ +E ++ L++ ++ + +
Sbjct: 100 SLFIAAKLEEIYPPKLHQFAYVTDGACSGDEILTMELMIMKALKWRLSPLTI----VSW- 154
Query: 275 LRSLAESNDLTFPAEPLSKERAQKLEAMSIVYAKYYFDLRSLAESNDLTFP 325
L + L E L + Q++ DL + + + L FP
Sbjct: 155 LNVYMQVAYLNDLHEVLLPQYPQQIFIQ----IAELLDL-CVLDVDCLEFP 200
>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 = 32.4 bits (74), Expect = 0.16
Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 1/72 (1%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
+L+ASK+ + C D S +++ + E++ LE L + + +
Sbjct: 100 CLLVASKLRSLTPISTSSLCYAAADSFSRQELIDQEKELLEKLAWRTEAVLATDVTSFLL 159
Query: 275 LRSLAESNDLTF 286
L+ + S L F
Sbjct: 160 LKLVGGSQHLDF 171
>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 = 32.0 bits (72), Expect = 0.29
Identities = 25/137 (18%), Positives = 49/137 (35%), Gaps = 15/137 (10%)
Query: 137 KYLEIFDEKLHPLTRDPVPEDYDRYPPEHRQIYKFIRTLFNAAQL-----TAECAIITLV 191
K+ L DPV + + K + + + A +
Sbjct: 29 KFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTAC---M 85
Query: 192 YLERLLTYAEVDITPGNWKRIVLGAILLASKVWD-----DQAVWNVDYCQILKDISVEDM 246
Y +R Y + + + I+L LA KV + Q V N+ + ++ ++E +
Sbjct: 86 YFKR--FYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQI 143
Query: 247 NELERQFLEMLQFNINV 263
E E ++ L F++ V
Sbjct: 144 LEYELLLIQQLNFHLIV 160
>2b9r_A Human cyclin B1; cell cycle; 2.90A {Homo sapiens} PDB: 2jgz_B*
Length = 269
Score = 30.4 bits (69), Expect = 0.78
Identities = 15/79 (18%), Positives = 33/79 (41%), Gaps = 6/79 (7%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKDI-SVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
A+ +ASK + D+ + + + + ++E + L L F + P +F
Sbjct: 87 AMFIASKYEEMYPPEIGDFAFVTDNTYTKHQIRQMEMKILRALNFGLGRPLP----LHF- 141
Query: 275 LRSLAESNDLTFPAEPLSK 293
LR ++ ++ L+K
Sbjct: 142 LRRASKIGEVDVEQHTLAK 160
>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 = 30.0 bits (68), Expect = 1.1
Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 5/79 (6%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKDI-SVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
A+LLASK + ++ I D + + + +E L++L F++ P+ F
Sbjct: 88 AMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLTFDLAAPTV----NQFL 143
Query: 275 LRSLAESNDLTFPAEPLSK 293
+ E L+
Sbjct: 144 TQYFLHQQPANCKVESLAM 162
>2crg_A Metastasis associated protein MTA3; transcription factor, helix
turn helix, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: a.4.1.3
Length = 70
Score = 27.2 bits (60), Expect = 1.7
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 67 ERSKLEQLVRVYQYNKNFSHIAADNRPLKKSSSCSTIY 104
E E+ + +Y K+F+ I D P K +S Y
Sbjct: 15 EACLFEE--ALEKYGKDFNDIRQDFLPWKSLTSIIEYY 50
>1zp2_A RNA polymerase II holoenzyme cyclin-like subunit; cyclin repeat
domains, transcription-cell cycle complex; 3.00A
{Schizosaccharomyces pombe}
Length = 235
Score = 29.2 bits (65), Expect = 1.7
Identities = 23/134 (17%), Positives = 44/134 (32%), Gaps = 22/134 (16%)
Query: 141 IFDEKLHPLTRDPVPEDYDRYPPEHRQIYKFIRTL---FNAAQLTAECAIITLVYLERLL 197
L L P + +K ++T Q AI V L R +
Sbjct: 11 FLSTDLESLE----PTCLSKD---TIYQWKVVQTFGDRLRLRQRVLATAI---VLLRRYM 60
Query: 198 TYAEVDITPGNWKRIVLGAILLASKV-------WDDQAVWNVDYCQILKDISVEDMNELE 250
+ + + + +V I L+ KV N + +K S +++E+E
Sbjct: 61 -LKKNEEKGFSLEALVATCIYLSCKVEECPVHIRTICNEANDLWSLKVKL-SRSNISEIE 118
Query: 251 RQFLEMLQFNINVP 264
+ + +L + V
Sbjct: 119 FEIISVLDAFLIVH 132
>1b79_A DNAB helicase; hexamer, DNA replication, hydrolase; 2.30A
{Escherichia coli} SCOP: a.81.1.1 PDB: 1jwe_A
Length = 119
Score = 28.3 bits (64), Expect = 2.0
Identities = 7/27 (25%), Positives = 12/27 (44%), Gaps = 2/27 (7%)
Query: 154 VPEDYDRYPPEHRQIYKFIRTLFNAAQ 180
V +D+ Y HR I+ + L +
Sbjct: 46 VADDF--YTRPHRHIFTEMARLQESGS 70
>3amj_B Zinc peptidase inactive subunit; alpha/beta, zinc binding,
hydrolase; 3.00A {Sphingomonas}
Length = 424
Score = 29.2 bits (66), Expect = 2.4
Identities = 12/55 (21%), Positives = 19/55 (34%), Gaps = 16/55 (29%)
Query: 306 YAKYYFDLRSLAESNDL--------------TFPAEPLSKERAQKLEAMSRIMED 346
A + LR L+ + TFPA L +ERA+ + +
Sbjct: 89 RASFS--LRVLSSPAERNSALTILRDILAHPTFPAPVLERERARAIAGLREAQTQ 141
Score = 27.6 bits (62), Expect = 6.9
Identities = 14/70 (20%), Positives = 23/70 (32%), Gaps = 20/70 (28%)
Query: 250 ERQFLEMLQF---NINVPSSV-YAKYYFDLRSLAESNDL--------------TFPAEPL 291
E + L + + A + LR L+ + TFPA L
Sbjct: 67 ENAIADRLADIGARLGGGAEADRASFS--LRVLSSPAERNSALTILRDILAHPTFPAPVL 124
Query: 292 SKERAQKLEA 301
+ERA+ +
Sbjct: 125 ERERARAIAG 134
>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 = 28.2 bits (63), Expect = 3.7
Identities = 12/111 (10%), Positives = 29/111 (26%), Gaps = 18/111 (16%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
A+ +A KV + + + + + LE + L+ L + + S
Sbjct: 98 ALHIAGKVRAYMPIKATQLAYLCGGATTADKLLTLEVKSLDTLSWVADRCLS----TDLI 153
Query: 275 LRSLAESNDLTFPAEPLSKERAQKLEAMSIVYAKYYFDLRSLAESNDLTFP 325
L +E + + + +L +
Sbjct: 154 CYILHIM--------HAPREDYLNIYNL----CRPKIFC-ALCDGRSAMKR 191
>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 = 28.1 bits (63), Expect = 3.8
Identities = 16/111 (14%), Positives = 36/111 (32%), Gaps = 18/111 (16%)
Query: 216 AILLASKVWDDQAVWNVDYCQILKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFD 274
+L+ SK+ + + + D + ++ E+ LE L+++ + F
Sbjct: 101 CVLIGSKIRTVKPMTVSKLTYLSCDCFTNLELINQEKDILEALKWDTEAVLA----TDF- 155
Query: 275 LRSLAESNDLTFPAEPLSKERAQKLEAMSIVYAKYYFDLRSLAESNDLTFP 325
L L A + ++ +L A +L + N
Sbjct: 156 LIPLCN-------ALKIPEDLWPQLYEA----ASTTICK-ALIQPNIALLS 194
>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 = 28.2 bits (63), Expect = 3.8
Identities = 24/149 (16%), Positives = 53/149 (35%), Gaps = 24/149 (16%)
Query: 180 QLTAECAIITLVYLERLLTYAEVDITPGNWKRIVLG--AILLASKVWDDQAVWNVDYCQI 237
+ E + + YL+R L+ + +LG +LLASK+ + + C
Sbjct: 86 RCEEEVFPLAMNYLDRYLSCVPTRK----AQLQLLGAVCMLLASKLRETTPLTIEKLCIY 141
Query: 238 LKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFDLRSLAESNDLTFPAEPLSKERA 296
+S + + E L L++++ + + F L + L
Sbjct: 142 TDHAVSPRQLRDWEVLVLGKLKWDLAAVIA----HDF-LAFILHRLSL-----------P 185
Query: 297 QKLEAMSIVYAKYYFDLRSLAESNDLTFP 325
+ +A+ +A+ + L + +P
Sbjct: 186 RDRQALVKKHAQTFLAL-CATDYTFAMYP 213
>3ba1_A HPPR, hydroxyphenylpyruvate reductase; two domain protein,
substrate binding domain, cofactor bindi domain,
oxidoreductase; 1.47A {Solenostemon scutellarioides}
PDB: 3baz_A*
Length = 333
Score = 28.4 bits (64), Expect = 3.9
Identities = 15/62 (24%), Positives = 26/62 (41%), Gaps = 17/62 (27%)
Query: 296 AQKLEA--MSIVY----------AKYYFDLRSLAESNDLTFPAEPLSKE-----RAQKLE 338
A++ EA I Y YY + LA ++D+ A PL+ E + ++
Sbjct: 180 AERAEAFDCPISYFSRSKKPNTNYTYYGSVVELASNSDILVVACPLTPETTHIINREVID 239
Query: 339 AM 340
A+
Sbjct: 240 AL 241
>3s5r_A Transcriptional regulator TETR family; DNA/RNA-binding 3-helical
bundle, tetracyclin repressor-like structural genomics;
2.60A {Syntrophus aciditrophicus}
Length = 216
Score = 28.2 bits (63), Expect = 4.0
Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 9/58 (15%)
Query: 125 AIYYYIKNGNSYK---YLEIFDEKLHPLTRDPVPEDYDRYPPEHRQ-IYKFIRTLFNA 178
I+YY K + I +E++ + D + E + + + + N
Sbjct: 46 MIHYYFKT----RDSLLDTIIEERIGRI-IDMIWEPVTGEEDDPLIMVRDLVNRIVNT 98
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus
aquaticus}
Length = 444
Score = 28.3 bits (64), Expect = 4.1
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 155 PEDYDRYPPEHRQIYKFIRTLFNAAQ 180
PE + Y HR+IY ++ L + +
Sbjct: 37 PEAF--YAEAHRKIYAAMQALRSQGR 60
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A
{Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A
2r6e_A 2vyf_A 2vye_A
Length = 454
Score = 28.3 bits (64), Expect = 4.3
Identities = 6/26 (23%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 155 PEDYDRYPPEHRQIYKFIRTLFNAAQ 180
PED+ Y H++I+ + + + +
Sbjct: 40 PEDF--YRAAHQKIFHAMLRVADRGE 63
>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 = 28.2 bits (62), Expect = 4.4
Identities = 26/134 (19%), Positives = 42/134 (31%), Gaps = 22/134 (16%)
Query: 148 PLTRDPV-PEDYDRYPPEHRQIYKFIRTLFNAAQLTAECAIITLVYLERLLTYAEVDITP 206
P R V + +Q I+ + ++ +VY+ R Y T
Sbjct: 16 PSRRCGVEADKELSC---RQQAANLIQEMGQRLNVSQLTINTAIVYMHRF--YMHHSFTK 70
Query: 207 GNWKRIVLGAILLASKVWDDQ----AVWNVDYCQILKDISVEDMN------------ELE 250
N I A+ LA+KV + V V + + + D LE
Sbjct: 71 FNKNIISSTALFLAAKVEEQARKLEHVIKVAHACLHPLEPLLDTKCDAYLQQTRELVILE 130
Query: 251 RQFLEMLQFNINVP 264
L+ L F I +
Sbjct: 131 TIMLQTLGFEITIE 144
>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 = 28.1 bits (63), Expect = 4.8
Identities = 20/117 (17%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 180 QLTAECAIITLVYLERLLTYAEVDITPGNWKRIVLG--AILLASKVWDDQAVWNVDYCQI 237
+ E + + YL+R L+ V + +LG + +ASK+ + + C
Sbjct: 72 KCEEEVFPLAMNYLDRFLSLEPVKK----SRLQLLGATCMFVASKMKETIPLTAEKLCIY 127
Query: 238 LKD-ISVEDMNELERQFLEMLQFNINVPSSVYAKYYFDLRSLAESNDLTFPAEPLSK 293
+ I E++ ++E + L++N+ + +F L + E+ + ++
Sbjct: 128 TDNSIRPEELLQMELLLVNKLKWNLAAMTPHDFIEHF-LSKMPEAEENKQIIRKHAQ 183
>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A
{Bacillus phage SPP1}
Length = 444
Score = 28.2 bits (64), Expect = 4.8
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 155 PEDYDRYPPEHRQIYKFIRTLFNAAQ 180
PE + P +H IY ++ L Q
Sbjct: 39 PEHF--SPGKHFNIYFTMQDLDRKGQ 62
>3gxv_A Replicative DNA helicase; hexameric helicase, primase, replication,
ATP-binding, autocatalytic cleavage, DNA replication;
2.20A {Helicobacter pylori} PDB: 3gxv_D 3gxv_C
Length = 123
Score = 27.1 bits (61), Expect = 4.8
Identities = 5/27 (18%), Positives = 9/27 (33%), Gaps = 2/27 (7%)
Query: 154 VPEDYDRYPPEHRQIYKFIRTLFNAAQ 180
P D+ Y P + ++ L
Sbjct: 36 EPSDF--YYPPNGLFFEIALKLHEEDC 60
>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 = 28.0 bits (62), Expect = 5.1
Identities = 23/121 (19%), Positives = 41/121 (33%), Gaps = 16/121 (13%)
Query: 155 PEDYDRYPPEHRQIYKFIRTLFNAAQLTAECAIITLVYLERLLTYAEVDITPGNWKRIVL 214
P RY R+ +FI + L + ++Y R Y
Sbjct: 34 PATEARY---RREGARFIFDVGTRLGLHYDTLATGIIYFHRF--YMFHSFKQFPRYVTGA 88
Query: 215 GAILLASKVWDD-----------QAVWNVDYCQILKDISVEDMNELERQFLEMLQFNINV 263
+ LA KV + +++ N D E++ LER L+ ++F++ V
Sbjct: 89 CCLFLAGKVEETPKKCKDIIKTARSLLNDVQFGQFGDDPKEEVMVLERILLQTIKFDLQV 148
Query: 264 P 264
Sbjct: 149 E 149
>2yqk_A Arginine-glutamic acid dipeptide repeats protein; structure
genomics, SANT domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 63
Score = 25.9 bits (57), Expect = 5.4
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 67 ERSKLEQLVRVYQYNKNFSHIAADNRPLKKSSSC 100
E + + + QY KNF I + P K++
Sbjct: 16 EVKRFVK--GLRQYGKNFFRIRKELLPNKETGEL 47
>2r5u_A Replicative DNA helicase; DNAB, primase, replication, ATP-binding,
autocatal cleavage, DNA replication, DNA-binding,
endonuclease; 1.90A {Mycobacterium tuberculosis}
Length = 200
Score = 27.6 bits (62), Expect = 5.6
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 155 PEDYDRYPPEHRQIYKFIRTLFNAAQ 180
P D+ Y P H+ +Y I L+ +
Sbjct: 57 PGDF--YRPAHQNVYDAILDLYGRGE 80
>4dgs_A Dehydrogenase; structural genomics, PSI-biology, NEW YORK
structural genomi research consortium, nysgrc,
oxidoreductase; 2.50A {Sinorhizobium meliloti}
Length = 340
Score = 28.0 bits (63), Expect = 5.7
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 17/62 (27%)
Query: 296 AQKLEA--MSIVY----------AKYYFDLRSLAESNDLTFPAEPLSKE-----RAQKLE 338
A + EA MS+ Y + LA +D+ S A L+
Sbjct: 187 ASRAEAFGMSVRYWNRSTLSGVDWIAHQSPVDLARDSDVLAVCVAASAATQNIVDASLLQ 246
Query: 339 AM 340
A+
Sbjct: 247 AL 248
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 6.5
Identities = 13/77 (16%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 278 LAESNDLTFPAEPLSK---ERAQKLEAMSIVYAKYYFDLRSLAESNDLTFPAEPLSKERA 334
+A+++ LT E + K E+ ++L+ + + R A+ + + E+
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQR--QSEQV 131
Query: 335 QKLEAMSRIMEDKMLRN 351
+K + +RI + +
Sbjct: 132 EKNKINNRIADKAFYQQ 148
>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 = 27.9 bits (61), Expect = 6.6
Identities = 24/135 (17%), Positives = 45/135 (33%), Gaps = 24/135 (17%)
Query: 148 PLTRDPV-PEDYDRYPPEHRQIYKFIRTLFNAAQLTAECAIITLVYLERLLTYAEVDITP 206
P R V P+ Y +Q ++ + ++ +VY+ R Y T
Sbjct: 23 PSRRFGVDPDKELSY---RQQAANLLQDMGQRLNVSQLTINTAIVYMHRF--YMIQSFTR 77
Query: 207 GNWKRIVLGAILLASKVWDDQAVWNVDYCQILKDIS-----------------VEDMNEL 249
+ A+ LA+KV ++Q ++ V+D+ L
Sbjct: 78 FPGNSVAPAALFLAAKV-EEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVIL 136
Query: 250 ERQFLEMLQFNINVP 264
E L+ L F + +
Sbjct: 137 ESIILQTLGFELTID 151
>3bcv_A Putative glycosyltransferase protein; protein structure initiative
II, PSI-II NYSGXRC, structural genomics; 2.35A
{Bacteroides fragilis}
Length = 240
Score = 27.2 bits (61), Expect = 8.1
Identities = 13/104 (12%), Positives = 27/104 (25%), Gaps = 11/104 (10%)
Query: 192 YLERLLTYAE---VDITPGNWKRIVLGAILLASKVWDDQAVWNVDYCQILKDISVEDMNE 248
+ A+ D KRI + + ++ + + +
Sbjct: 101 MYMTMYNVAQKYTCDAVFTGLKRIT------MAGIPTGTVTHQKEFKLYKNKNEIHTLLK 154
Query: 249 LERQFLEMLQFNINVPSSVYAKYYFDLRSLAESNDLTFPAEPLS 292
+ + S Y R+L E L F +E +
Sbjct: 155 DLIASDPYAREERAIQVSAKVVLY--RRNLIEKKHLRFVSERIL 196
>3k81_A Single strand antibody VHH domain; krepa6, single domain antibody,
immune system, RNA BIND protein; 3.40A {Lama glama}
Length = 127
Score = 26.3 bits (59), Expect = 8.3
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 13/59 (22%)
Query: 97 SSSCSTIYLDDS-----TVSQPNLKNTV-------KCSALAIYYYIKNGNSYKYLEIFD 143
++ T Y+D S TVS+ N KN + K A+YY N +
Sbjct: 52 NNEGRTNYVD-SVKGRFTVSRDNAKNVMYLQMNSLKPEDTAVYYCNANLQTGTLSGARL 109
>3bqz_B HTH-type transcriptional regulator QACR; multidrug resistance,
TETR, malachite green, DNA- binding, plasmid, repressor;
HET: MGR; 2.17A {Staphylococcus aureus} PDB: 3br1_B*
3br3_B* 3pm1_B* 1rkw_B* 1jt0_A* 1jty_B* 1jum_B* 1jup_B*
1jtx_B* 1jus_B* 2dtz_B 2gby_B* 2hq5_B 3br2_B* 3br5_B*
1qvt_B* 1qvu_B* 3br0_B* 3br6_B* 1jt6_B* ...
Length = 194
Score = 27.0 bits (60), Expect = 8.6
Identities = 12/77 (15%), Positives = 24/77 (31%), Gaps = 8/77 (10%)
Query: 125 AIYYYIKNGNSYK---YLEIFDEKLHPLTRDPVPEDYDRYPPEHRQIYKFIRTLFNAAQL 181
+YY+ K K +LEI + + ++ ++ + + Y +
Sbjct: 38 NLYYHFKT----KENLFLEILNIEESKW-QEQWKKEQIKAKTNREKFYLYNELSLTTQYY 92
Query: 182 TAECAIITLVYLERLLT 198
I Y E T
Sbjct: 93 YPLQNAIIEFYTEYYKT 109
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
0.316 0.131 0.381
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,742,998
Number of extensions: 339603
Number of successful extensions: 903
Number of sequences better than 10.0: 1
Number of HSP's gapped: 891
Number of HSP's successfully gapped: 52
Length of query: 377
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 282
Effective length of database: 4,049,298
Effective search space: 1141902036
Effective search space used: 1141902036
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.0 bits)