RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15070
(308 letters)
>2e31_A FBS1, F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, FBS1;
2.40A {Mus musculus} PDB: 2e32_A
Length = 297
Score = 188 bits (478), Expect = 2e-58
Identities = 77/269 (28%), Positives = 128/269 (47%), Gaps = 28/269 (10%)
Query: 21 PDEVLEVILVHMEIRTLL-ASRRVCKKWKSLIETQVLKERAILEGFTRGLTNEDKMNVEW 79
P+ +L +L + L+ A R VC +WK L++ L + + D+ W
Sbjct: 55 PEPLLLRVLAELPATELVQACRLVCLRWKELVDGAPLWLLKCQQEGLVPEGSADEERDHW 114
Query: 80 TTWYLMLSPNSLFNRNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDDT 139
+Y S RNL++NPCG++ W + +GG+GWKVE P E DD+
Sbjct: 115 QQFY----FLSKRRRNLLRNPCGEEDLEGWSDVEHGGDGWKVEELPGDNGVE--FTQDDS 168
Query: 140 IPSYWTKITKDSKKATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVYS 199
+ F +S+ C K Q IDL ++++ PAIV
Sbjct: 169 VKK--------------------YFASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVVK 208
Query: 200 EWFCRRFDCGGRYDLRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRYI 258
+W+ R D G Y+L V LL+E + +LA + + E+ W ++ + F +Y GVR++
Sbjct: 209 DWYSGRTDAGSLYELTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRFV 268
Query: 259 LFIHEGVDSQFWQGHYGPKMTRATVFLIP 287
F H G DS +W+G +G ++T ++V++ P
Sbjct: 269 RFEHGGQDSVYWKGWFGARVTNSSVWVEP 297
>2rj2_A F-box only protein 2; ubiquitin, SCF, ubiquitin ligase, lectin, UBL
conjugation pathway; 1.70A {Mus musculus} PDB: 1umh_A
2e33_A* 1umi_A*
Length = 185
Score = 180 bits (457), Expect = 1e-56
Identities = 62/210 (29%), Positives = 104/210 (49%), Gaps = 27/210 (12%)
Query: 79 WTTWYLMLSPNSLFNRNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDD 138
+Y + RNL++NPCG++ W + +GG+GWKVE P + E DD
Sbjct: 2 SHMFYFLSK----RRRNLLRNPCGEEDLEGWSDVEHGGDGWKVEELPGDGNVE--FTQDD 55
Query: 139 TIPSYWTKITKDSKKATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVY 198
++ F +S+ C K Q IDL ++++ PAIV
Sbjct: 56 SVKK--------------------YFASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVV 95
Query: 199 SEWFCRRFDCGGRYDLRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRY 257
+W+ R D G Y+L V LL+E + +LA + + E+ W ++ + F +Y GVR+
Sbjct: 96 KDWYSGRTDAGSLYELTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRF 155
Query: 258 ILFIHEGVDSQFWQGHYGPKMTRATVFLIP 287
+ F H G DS +W+G +G ++T ++V++ P
Sbjct: 156 VRFEHGGQDSVYWKGWFGARVTNSSVWVEP 185
>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 = 45.0 bits (106), Expect = 2e-05
Identities = 71/403 (17%), Positives = 105/403 (26%), Gaps = 159/403 (39%)
Query: 10 FNGSKLNGVYFPDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVLKERAILEGFTRGL 69
F G YF E+R L + + L+ + L R
Sbjct: 160 FGGQGNTDDYFE-----------ELRDLYQT------YHVLVGDLIKFSAETLSELIRTT 202
Query: 70 TNEDK-----MNVEWTTW-----------YLMLSPNSL-------------FNRNLVKNP 100
+ +K +N+ W YL+ P S + L P
Sbjct: 203 LDAEKVFTQGLNIL--EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTP 260
Query: 101 ------------CGQD--------KFNSWEILNNGGNGWKVETPPF--GL-SQEAQP--- 134
Q + +SWE + K T F G+ EA P
Sbjct: 261 GELRSYLKGATGHSQGLVTAVAIAETDSWESFFV--SVRKAITVLFFIGVRCYEAYPNTS 318
Query: 135 LP----------DDTIPSY------------WTKITK-------DSKKATSSTNTESCFV 165
LP ++ +PS + K + S N V
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV 378
Query: 166 TS------YGRCSKQQWIDLGKRKTMLDVIERLNPAIVYSEWFCRRFDCGGRYDLRVA-- 217
S YG + K + LD R I +SE R+ R+ L VA
Sbjct: 379 VSGPPQSLYGLNL---TLRKAKAPSGLD-QSR----IPFSE---RKLKFSNRF-LPVASP 426
Query: 218 ----LLNEAKKL----------------LAYHIHHTDIGENFKWQKVENKFENYPSGVRY 257
LL A L + ++ T G + + + V
Sbjct: 427 FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSD--LRVLSG--SISERIVDC 482
Query: 258 ILFIHEGVDSQFWQGHYGPKMTRATVFLIPPGQSYSIRTDGNL 300
I I V W+ K T F PG + + G L
Sbjct: 483 I--IRLPVK---WETTTQFKATHILDF--GPGGASGL---GVL 515
>1fs1_A SKP2 F-BOX, cyclin A/CDK2-associated P19; F-BOX, LRR,
leucine-rich repeat, SCF, ubiquitin, ubiquitin protein
ligase; 1.80A {Homo sapiens} SCOP: a.158.1.1 PDB:
1ldk_E
Length = 53
Score = 38.4 bits (90), Expect = 1e-04
Identities = 14/46 (30%), Positives = 21/46 (45%)
Query: 11 NGSKLNGVYFPDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVL 56
N ++ PDE+L I + + LL VCK+W L + L
Sbjct: 3 NFPGVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESL 48
>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 = 42.1 bits (98), Expect = 2e-04
Identities = 51/328 (15%), Positives = 93/328 (28%), Gaps = 99/328 (30%)
Query: 1 NNSLGEIDPFNGSKLNGVYFPDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVL---K 57
L +IDP S+ + + I E+R LL S+ L+ VL +
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSI--QAELRRLLKSKPYEN---CLL---VLLNVQ 254
Query: 58 ERAILEGFTRG----LTNEDKMNVEWTTWYLMLSPNSLFNRNLVKNPCGQDKFNSWEILN 113
F LT K + LS + + +L + +L
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTD------FLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 114 NGGNGWKVETPPFGLSQEAQ---PLPDDTIP----------SYWTKITKDSKKAT--SST 158
+ ++ P L +E P I W + D SS
Sbjct: 309 K----Y-LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363
Query: 159 N--TESCFVTSYGRCS-------------KQQWIDLGKRKTMLDVIERLNPAIVYSEWFC 203
N + + + R S W D+ K M+ V + ++V +
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Query: 204 RRFDCGGRY-DLRVALLNEA---KKL---------------------------LAYHIHH 232
Y +L+V L NE + + + +H+ +
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483
Query: 233 TDIGE----------NFKWQKVENKFEN 250
+ E +F++ +E K +
Sbjct: 484 IEHPERMTLFRMVFLDFRF--LEQKIRH 509
Score = 37.1 bits (85), Expect = 0.007
Identities = 32/233 (13%), Positives = 72/233 (30%), Gaps = 53/233 (22%)
Query: 23 EVLEVILVHMEIRTLLASRRVCKKWKSLIETQVLKERAILEGFTRGLTNEDKMNVEWTTW 82
++ + IL EI ++ S+ L T + K+ +++ F + ++N ++
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV---LRINYKF--- 93
Query: 83 YLMLSPNSLFNRNLVKNPCGQ-DKFNSW-EILNNGGNGWKVETPPFGLSQEAQPLPDDTI 140
LM + + + P + + L N Q +
Sbjct: 94 -LM---SPIKTEQ--RQPSMMTRMYIEQRDRLYNDN----------------QVFAKYNV 131
Query: 141 P--SYWTKITKDSKKATSSTNT---------ESCFVTSYGRCSKQQ--------WIDLGK 181
+ K+ + + + N ++ K Q W++L
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 182 RKTMLDVIERLNPAIVY--SEWFCRRFDCGGRYDLRVALLNEAKK-LLAYHIH 231
+ V+E L ++Y + R D LR+ + + LL +
Sbjct: 192 CNSPETVLEMLQ-KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR,
cell cycle, protein turnover COM ligase-ligase
inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP:
a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A
Length = 336
Score = 39.1 bits (91), Expect = 0.001
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 21 PDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVLKERAILEG 64
PDE+L I + + LL VCK+W L + L + L G
Sbjct: 13 PDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTG 56
>2ovr_B FBW7, F-BOX/WD repeat protein 7, F-box PROT; WD40 domains, double
phosphorylation, transcription-C complex; HET: TPO;
2.50A {Homo sapiens} SCOP: a.158.1.1 b.69.4.1 PDB:
2ovp_B* 2ovq_B*
Length = 445
Score = 36.9 bits (86), Expect = 0.007
Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 1/76 (1%)
Query: 20 FPDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVLKERAILEGFTRGLTNEDKMNVEW 79
P E+ +L +E + LL + + C+ W+ L E +L E + + V
Sbjct: 22 LPKELALYVLSFLEPKDLLQAAQTCRYWRILAEDNLLWREKCKEEGIDEPLHIKRRKV-I 80
Query: 80 TTWYLMLSPNSLFNRN 95
++ S + R
Sbjct: 81 KPGFIHSPWKSAYIRQ 96
>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation
pathway, ubiquitin Pro ligase, protein binding-cell
cycle complex; 2.80A {Homo sapiens}
Length = 312
Score = 35.9 bits (82), Expect = 0.014
Identities = 7/36 (19%), Positives = 11/36 (30%)
Query: 21 PDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVL 56
P +V IL + L W + +L
Sbjct: 9 PIDVQLYILSFLSPHDLCQLGSTNHYWNETVRDPIL 44
>3v7d_B Cell division control protein 4; WD 40 domain, phospho-peptide
complex, E3 ubiquitin ligase, cell cycle, phospho
binding protein, phosphorylation; HET: SEP; 2.31A
{Saccharomyces cerevisiae} PDB: 1nex_B* 3mks_B*
Length = 464
Score = 35.3 bits (82), Expect = 0.024
Identities = 7/32 (21%), Positives = 15/32 (46%)
Query: 20 FPDEVLEVILVHMEIRTLLASRRVCKKWKSLI 51
P E+ I +++ ++ S V + W +I
Sbjct: 18 LPFEISLKIFNYLQFEDIINSLGVSQNWNKII 49
>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin
ligase, SCF, protein binding; HET: OGK; 2.80A
{Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*
Length = 592
Score = 34.9 bits (80), Expect = 0.034
Identities = 9/39 (23%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 13 SKLNGVYFPDEVLEVILVHME-IRTLLASRRVCKKWKSL 50
KL+ V D+V+E ++ ++ + ++ VC++W +
Sbjct: 9 CKLSCVATVDDVIEQVMTYITDPKDRDSASLVCRRWFKI 47
>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich
repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis
thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B*
3c6o_B* 3c6p_B*
Length = 594
Score = 34.9 bits (80), Expect = 0.034
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 19 YFPDEVLEVILVHMEI-RTLLASRRVCKKWKSL 50
FP+EVLE + +++ + + VCK W +
Sbjct: 8 SFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEI 40
>1p22_A F-BOX/WD-repeat protein 1A; ubiquitination, degradation,
signaling protein; HET: SEP; 2.95A {Homo sapiens} SCOP:
a.158.1.1 b.69.4.1
Length = 435
Score = 32.7 bits (75), Expect = 0.13
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 5/68 (7%)
Query: 21 PDEVLEVILVHMEIRTLLASRRVCKKWKSLIETQVL-----KERAILEGFTRGLTNEDKM 75
D + E IL +++ ++L A+ VCK+W + +L + + RGL
Sbjct: 19 LDHIAENILSYLDAKSLCAAELVCKEWYRVTSDGMLWKKLIERMVRTDSLWRGLAERRGW 78
Query: 76 NVEWTTWY 83
Sbjct: 79 GQYLFKNK 86
>3iwf_A Transcription regulator RPIR family; transcriptional, N-terminal,
PSI, MCSG, structural genomics, midwest center
structural genomics; 1.40A {Staphylococcus epidermidis}
Length = 107
Score = 27.3 bits (61), Expect = 2.8
Identities = 6/37 (16%), Positives = 16/37 (43%), Gaps = 2/37 (5%)
Query: 202 FCRRFDCGGRYDLRVALLNEAKKLLAYHIHHTDIGEN 238
++ GG +L+ L K + ++ ++ +N
Sbjct: 55 LSKKVTPGGFNELKTRLSKFLPKEVTQ--YNVELVDN 89
>1x3d_A Fibronectin type-III domain containing protein 3A; structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
b.1.2.1
Length = 118
Score = 26.6 bits (59), Expect = 5.1
Identities = 6/39 (15%), Positives = 13/39 (33%)
Query: 257 YILFIHEGVDSQFWQGHYGPKMTRATVFLIPPGQSYSIR 295
++L EG + + Y + + + P R
Sbjct: 51 FVLEWDEGKGNGEFCQCYMGSQKQFKITKLSPAMGCKFR 89
>2vpv_A Protein MIF2, MIF2P; nucleus, mitosis, centromere, cell cycle,
DNA-binding, kinetochore, cell division, phosphoprotein,
jelly-roll fold; 2.7A {Saccharomyces cerevisiae}
Length = 166
Score = 27.0 bits (59), Expect = 6.5
Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 13/51 (25%)
Query: 257 YILFIHEGV------DSQFWQGHYGPKMTRATVFLIPPGQSYSIRTDGNLP 301
+ +G+ ++F + + F IP Y+I GN
Sbjct: 112 ITFHVIQGIVEVTVCKNKF-------LSVKGSTFQIPAFNEYAIANRGNDE 155
>2p9r_A Alpha-2-M, alpha-2-macroglobulin; human alpha2-macroglobulin, Mg2
domain, X-RAY, signaling protein; 2.30A {Homo sapiens}
Length = 102
Score = 26.2 bits (57), Expect = 7.0
Identities = 9/60 (15%), Positives = 18/60 (30%), Gaps = 3/60 (5%)
Query: 103 QDKFNSWEILNNGGN---GWKVETPPFGLSQEAQPLPDDTIPSYWTKITKDSKKATSSTN 159
+ I + GN W+ GL Q + PL + + + + +
Sbjct: 34 NELIPLVYIQDPKGNRIAQWQSFQLEGGLKQFSFPLSSEPFQGSYKVVVQKKSGGRTEHP 93
>2dju_A Receptor-type tyrosine-protein phosphatase F; LAR protein,
leukocyte antigen related, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 106
Score = 25.7 bits (57), Expect = 8.9
Identities = 8/39 (20%), Positives = 14/39 (35%)
Query: 257 YILFIHEGVDSQFWQGHYGPKMTRATVFLIPPGQSYSIR 295
Y + +Q G TR ++ + P Y+ R
Sbjct: 39 YGIQYRAAGTEGPFQEVDGVATTRYSIGGLSPFSEYAFR 77
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
0.319 0.136 0.433
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,890,473
Number of extensions: 277014
Number of successful extensions: 578
Number of sequences better than 10.0: 1
Number of HSP's gapped: 565
Number of HSP's successfully gapped: 22
Length of query: 308
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 215
Effective length of database: 4,105,140
Effective search space: 882605100
Effective search space used: 882605100
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: 57 (25.7 bits)