RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17891
(163 letters)
>1vcb_B Protein (elongin C); tumor suppressor, cancer, ubiquitin, beta
sandwich, transcription, transcriptional elongation;
2.70A {Homo sapiens} SCOP: d.42.1.1
Length = 112
Score = 183 bits (466), Expect = 4e-61
Identities = 101/109 (92%), Positives = 105/109 (96%)
Query: 55 EDKQHGGCEGPNAMYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFR 114
E+K +GGCEGP+AMYVKLISSDGHEFIVKREHAL SGTIKAMLSGPGQFAENETNE+NFR
Sbjct: 4 EEKTYGGCEGPDAMYVKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFR 63
Query: 115 EIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALELLMAANFLDC 163
EIPSHVL KVCMYFTYKVRYTNSSTEIPEFPIAP IALELLMAANFLDC
Sbjct: 64 EIPSHVLSKVCMYFTYKVRYTNSSTEIPEFPIAPEIALELLMAANFLDC 112
>2fnj_C Transcription elongation factor B polypeptide 1; beta-sandwich,
lectin-like, SPRY, protein transport/signaling protein
complex; 1.80A {Mus musculus} SCOP: d.42.1.1 PDB: 1lqb_B
1lm8_C 2jz3_C 2xai_B 2c9w_C 2izv_C 3dcg_B 3zrc_B* 3zrf_B
Length = 96
Score = 165 bits (420), Expect = 3e-54
Identities = 92/96 (95%), Positives = 93/96 (96%)
Query: 68 MYVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMY 127
MYVKLISSDGHEFIVKREHAL SGTIKAMLSGPGQFAENETNE+NFREIPSHVL KVCMY
Sbjct: 1 MYVKLISSDGHEFIVKREHALTSGTIKAMLSGPGQFAENETNEVNFREIPSHVLSKVCMY 60
Query: 128 FTYKVRYTNSSTEIPEFPIAPAIALELLMAANFLDC 163
FTYKVRYTNSSTEIPEFPIAP IALELLMAANFLDC
Sbjct: 61 FTYKVRYTNSSTEIPEFPIAPEIALELLMAANFLDC 96
>1hv2_A Elongin C, ELC1; protein-peptide complex, signaling protein; NMR
{Saccharomyces cerevisiae} SCOP: d.42.1.1
Length = 99
Score = 133 bits (337), Expect = 1e-41
Identities = 36/97 (37%), Positives = 59/97 (60%), Gaps = 6/97 (6%)
Query: 69 YVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYF 128
+V L+S D E+ + R A++S T+KAM+ GP + ++ I ++ SH+L+K Y
Sbjct: 5 FVTLVSKDDKEYEISRSAAMISPTLKAMIEGPFRESK---GRIELKQFDSHILEKAVEYL 61
Query: 129 TYKVRYTNSST---EIPEFPIAPAIALELLMAANFLD 162
Y ++Y+ S EIPEF I ++LELL+AA++L
Sbjct: 62 NYNLKYSGVSEDDDEIPEFEIPTEMSLELLLAADYLS 98
>2ast_A S-phase kinase-associated protein 1A; SCF-substrate complex, LRR,
cell cycle, protein turnover COM ligase-ligase inhibitor
complex; HET: TPO; 2.30A {Homo sapiens} PDB: 2ass_A*
2e31_B 2e32_B 3l2o_A 1p22_B* 2ovr_A* 2ovp_A 1fqv_B*
2ovq_A*
Length = 159
Score = 68.0 bits (165), Expect = 3e-15
Identities = 22/74 (29%), Positives = 33/74 (44%)
Query: 70 VKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFT 129
+KL SSDG F V E A S TIK ML G E + + + + + +L+KV + T
Sbjct: 3 IKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLGMDDEGDDDPVPLPNVNAAILKKVIQWCT 62
Query: 130 YKVRYTNSSTEIPE 143
+ +
Sbjct: 63 HHKDDPPPPEDDEN 76
>3v7d_A Suppressor of kinetochore protein 1; WD 40 domain, phospho-peptide
complex, E3 ubiquitin ligase, cell cycle, phospho
binding protein, phosphorylation; HET: SEP; 2.31A
{Saccharomyces cerevisiae} PDB: 1nex_A* 3mks_A*
Length = 169
Score = 62.9 bits (152), Expect = 3e-13
Identities = 23/110 (20%), Positives = 45/110 (40%), Gaps = 16/110 (14%)
Query: 69 YVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNE--INFREIPSHVLQKVCM 126
V L+S +G F V ++ A S +K L+ G + + +E + + S VLQKV
Sbjct: 8 NVVLVSGEGERFTVDKKIAERSLLLKNYLNDMGDDDDEDDDEIVMPVPNVRSSVLQKVIE 67
Query: 127 YFTYKVRYTNSSTEIPEFP--------------IAPAIALELLMAANFLD 162
+ + + + + + E+++AAN+L+
Sbjct: 68 WAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLN 117
>2p1m_A SKP1-like protein 1A; F-BOX, leucine rich repeat, signaling
protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB:
2p1n_A* 2p1o_A* 2p1p_A* 2p1q_A* 3c6n_A* 3c6o_A* 3c6p_A*
3ogk_A* 3ogl_A* 3ogm_A*
Length = 160
Score = 60.6 bits (146), Expect = 2e-12
Identities = 23/77 (29%), Positives = 29/77 (37%), Gaps = 5/77 (6%)
Query: 69 YVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYF 128
+ L SSDG F V+ AL S TI M+ N + + S +L KV Y
Sbjct: 5 KIVLKSSDGESFEVEEAVALESQTIAHMVEDDC-----VDNGVPLPNVTSKILAKVIEYC 59
Query: 129 TYKVRYTNSSTEIPEFP 145
V S E E
Sbjct: 60 KRHVEAAASKAEAVEGA 76
>1fs1_B SKP1, cyclin A/CDK2-associated P45; F-BOX, LRR, leucine-rich
repeat, SCF, ubiquitin, ubiquitin protein ligase; 1.80A
{Homo sapiens} SCOP: a.157.1.1 d.42.1.1 PDB: 1fs2_B
1ldk_D
Length = 141
Score = 54.3 bits (130), Expect = 4e-10
Identities = 30/109 (27%), Positives = 46/109 (42%), Gaps = 21/109 (19%)
Query: 69 YVKLISSDGHEFIVKREHALMSGTIKAMLSGPGQFAENETNEINFREIPSHVLQKVCMYF 128
+KL SSDG F V E A S TIK ML G + + + + +L+KV +
Sbjct: 3 SIKLQSSDGEIFEVDVEIAKQSVTIKTMLEDLG------MDPVPLPNVNAAILKKVIQWC 56
Query: 129 TY----------KVRYTNSSTEIPEF-----PIAPAIALELLMAANFLD 162
T+ + +IP + + EL++AAN+LD
Sbjct: 57 THHKDDPPPPEDDENKEKRTDDIPVWDQEFLKVDQGTLFELILAANYLD 105
>4eoz_A Speckle-type POZ protein; E3 ubiquitin ligase, nucleus, protein
binding; 2.40A {Homo sapiens}
Length = 145
Score = 33.7 bits (78), Expect = 0.010
Identities = 15/69 (21%), Positives = 27/69 (39%), Gaps = 13/69 (18%)
Query: 94 KAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALE 153
AM E++ N + ++ V +++ M F Y T + P +A +
Sbjct: 52 SAMFEHE--MEESKKNRVEINDVEPEVFKEM-MCFIY--------TG--KAPNLDKMADD 98
Query: 154 LLMAANFLD 162
LL AA+
Sbjct: 99 LLAAADKYA 107
>2vkp_A BTB/POZ domain-containing protein 6; protein-binding; 1.9A {Homo
sapiens}
Length = 109
Score = 28.7 bits (65), Expect = 0.35
Identities = 14/69 (20%), Positives = 22/69 (31%), Gaps = 14/69 (20%)
Query: 94 KAMLSGPGQFAENETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALE 153
AM G AE +EI+ ++ + Y Y++ E + L
Sbjct: 39 YAMFYGD--LAEV-KSEIHIPDVEPAAFLILLKYM-----YSD------EIDLEADTVLA 84
Query: 154 LLMAANFLD 162
L AA
Sbjct: 85 TLYAAKKYI 93
>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 = 28.5 bits (63), Expect = 1.2
Identities = 17/113 (15%), Positives = 24/113 (21%), Gaps = 34/113 (30%)
Query: 1 MGRDR----------FNRGDKPTIYCEGLNSSEIEEEEDRIGESQPFLEQTGRYFYLGTY 50
MG D +NR D G + +I P + G
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVIN-------NP----VNLTIHFGGE 1679
Query: 51 IGKDEDKQHGGCEGPNAMYVKLI---SSDGHEFIVKREHALMSGTIKAMLSGP 100
GK Y +I DG K + +
Sbjct: 1680 KGK----------RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE 1722
>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 = 1.4
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 21/47 (44%)
Query: 107 ETNEINFREIPSHVLQKVCMYFTYKVRYTNSSTEIPEFPIAPAIALE 153
E + +++ + + K+ Y + S APA+A++
Sbjct: 18 EKQAL--KKLQASL----------KL-YADDS--------APALAIK 43
>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 = 27.1 bits (59), Expect = 3.5
Identities = 16/99 (16%), Positives = 28/99 (28%), Gaps = 28/99 (28%)
Query: 25 EEEEDRIGESQPFLEQTGRYF-------------YLGTYIGKD----EDKQHGGCEGPNA 67
+EE D I S+ + T R F ++ + + P+
Sbjct: 48 KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107
Query: 68 MYVKLIS------SDGHEFI---VKREHALMSGTIKAML 97
M I +D F V R + ++ L
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL--KLRQAL 144
Score = 27.1 bits (59), Expect = 3.9
Identities = 13/143 (9%), Positives = 41/143 (28%), Gaps = 37/143 (25%)
Query: 18 GLNSSEIEEEEDRIGESQPFLEQTGRYF--YLGTYIGKDEDKQHGGCEGPNAMYVKLISS 75
++ I + + + ++ YL + +D N + +I+
Sbjct: 283 AATTTHISLDHHSMTLTP---DEVKSLLLKYLDC---RPQDLPREVLTT-NPRRLSIIAE 335
Query: 76 DGHEFIVKREHAL------MSGTIKAMLSGPGQFAENETNE------INFRE---IPSHV 120
+ + ++ ++ I++ L+ E + + F IP+ +
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLN---VLEPAEYRKMFDRLSV-FPPSAHIPTIL 391
Query: 121 LQKVCMYFTYKVRYTNSSTEIPE 143
L + + +
Sbjct: 392 L---SLI------WFDVIKSDVM 405
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
0.318 0.137 0.405
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,458,053
Number of extensions: 135179
Number of successful extensions: 210
Number of sequences better than 10.0: 1
Number of HSP's gapped: 208
Number of HSP's successfully gapped: 18
Length of query: 163
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 77
Effective length of database: 4,300,587
Effective search space: 331145199
Effective search space used: 331145199
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 (21.7 bits)
S2: 53 (24.0 bits)