RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2889
(163 letters)
>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 = 42.0 bits (98), Expect = 4e-05
Identities = 28/139 (20%), Positives = 55/139 (39%), Gaps = 36/139 (25%)
Query: 36 LIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRI--NLTEKQCKLI 93
L++ + R + A E + +Y +IA N R+ + +++ + +
Sbjct: 1782 LVEVVFYRGMTMQV--AVPRDELGRSNYG-------MIAI---NPGRVAASFSQEALQYV 1829
Query: 94 IEKSKKKATE--E-ANIILYNARVEIIKQINIARENLHNEIVNLAIKSAEKILN----NK 146
+E+ K+ E N YN + Q A ++ A+ + +LN K
Sbjct: 1830 VERVGKRTGWLVEIVN---YNVENQ---QYVAA-----GDLR--ALDTVTNVLNFIKLQK 1876
Query: 147 ITI-EVNSSL-LNQLKIEL 163
I I E+ SL L +++ L
Sbjct: 1877 IDIIELQKSLSLEEVEGHL 1895
>1b9u_A Protein (ATP synthase); membrane protein, hydrolase; HET: GMA;
NMR {Synthetic} SCOP: j.35.1.1
Length = 34
Score = 34.3 bits (79), Expect = 0.001
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 27 FTKKFIWPPLIKALD 41
F K++WPPL+ A++
Sbjct: 20 FCMKYVWPPLMAAIE 34
>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 = 0.010
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 87 EKQC--KLIIEKS-KKKATEEANIILYNARVE 115
EKQ KL + S K A + A + A +E
Sbjct: 18 EKQALKKL--QASLKLYADDSAPALAIKATME 47
>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 = 31.4 bits (70), Expect = 0.15
Identities = 26/175 (14%), Positives = 62/175 (35%), Gaps = 34/175 (19%)
Query: 22 TIKCCFTKKFIWPP---LIKALDDRKKKIADILAAANSEKEKVSYDRKRIQKE------- 71
+K C + + + L+ +D +D + + + +R+ K
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 72 LIATHEENKNRINLTEKQCKLII-------------EKSKKKATEEANIILYNARVE--I 116
L+ + +N N CK+++ + + + ++ L V+ +
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307
Query: 117 IKQINIARENLHNEIVN---LAIKS-AEKILNNKITIE----VNSSLLNQLKIEL 163
+K ++ ++L E++ + AE I + T + VN L + IE
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTI-IES 361
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 29.4 bits (67), Expect = 0.50
Identities = 11/46 (23%), Positives = 21/46 (45%)
Query: 44 KKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQ 89
K+I D++ A + ++K Y K K T +E + + E +
Sbjct: 589 NKEIRDVIRATVAAEDKAEYKTKAAPKLSKMTKKERQKVVEQMEHE 634
>1l2p_A ATP synthase B chain; alpha helix, hydrolase; 1.55A {Escherichia
coli} SCOP: f.23.21.1
Length = 61
Score = 27.1 bits (60), Expect = 0.59
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 70 KELIATHEENKNRINLTEKQCKLIIEKSKKKATEEANIILYNARVEIIKQINIARENL 127
+L E + I K+ I++++K +A +E I+ A+ EI + ARE L
Sbjct: 2 DQLKKAKAEAQVIIEQANKRRSQILDEAKAEAEQERTKIVAQAQAEIEAERKRAREEL 59
>1y4c_A Maltose binding protein fused with designed helical protein; de
novo designed helical protein, maltose binding protein
fusion, de novo protein; HET: GLC; 1.90A {Escherichia
coli}
Length = 494
Score = 28.3 bits (63), Expect = 1.2
Identities = 17/76 (22%), Positives = 28/76 (36%)
Query: 38 KALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLIIEKS 97
+AL D + + N+ R + IA E K E K E+
Sbjct: 359 EALKDAQTNSSSNNNNNNNNNNLGIEGRSSEELLKIALQEAQKTLQQAQELAKKGGGEEQ 418
Query: 98 KKKATEEANIILYNAR 113
K+A + A+ L+ A+
Sbjct: 419 LKRALKRADRNLWAAQ 434
>2khk_A ATP synthase subunit B; F1FO ATP synthase, spectroscopy, ATP
synthesis, inner membrane, cell membrane, CF(0),
hydrogen ION transpor transport; NMR {Escherichia coli}
Length = 53
Score = 26.2 bits (58), Expect = 1.4
Identities = 16/64 (25%), Positives = 33/64 (51%), Gaps = 11/64 (17%)
Query: 37 IKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLIIEK 96
+ A++ R+K+IAD LA+A R K+L +++ + + ++IIE+
Sbjct: 1 MAAIEKRQKEIADGLASAE-----------RAHKDLDLAKASATDQLKKAKAEAQVIIEQ 49
Query: 97 SKKK 100
+ K+
Sbjct: 50 ANKR 53
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 1.5
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 7/69 (10%)
Query: 62 SYDRKRIQKELIAT-HEENKNRIN----LTEKQCKLIIEKSKKKATEEANIILYNARVEI 116
DR + E I EE + R+ ++ + EK+KK E + +VE
Sbjct: 76 QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQ--RQSEQVEK 133
Query: 117 IKQINIARE 125
K N +
Sbjct: 134 NKINNRIAD 142
Score = 27.0 bits (59), Expect = 2.6
Identities = 13/66 (19%), Positives = 36/66 (54%), Gaps = 16/66 (24%)
Query: 42 DRKKKIADILAAANSEKEKVSYDRKRIQKELIATHEENKNRINLTEKQCKLIIEKSKK-- 99
+++K++ ++ AA+ +++ R++ +K+L E N+ + +Q +EK+K
Sbjct: 93 EQRKRLQELDAASKVMEQEW---REKAKKDL---EEWNQRQ----SEQ----VEKNKINN 138
Query: 100 KATEEA 105
+ ++A
Sbjct: 139 RIADKA 144
>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein
interactions, TPR, super-helix,; 2.9A {Homo sapiens}
SCOP: a.118.8.1 d.159.1.3
Length = 477
Score = 27.3 bits (61), Expect = 2.8
Identities = 15/80 (18%), Positives = 34/80 (42%), Gaps = 13/80 (16%)
Query: 38 KALDDRKKKIADILAAANSEKEKVSYDRKRIQ---------KELIATHEENKNRINLTEK 88
A D+ K+ + D L + E Y +++ KEL+ +++ K L K
Sbjct: 130 IAGDEHKRSVVDSLDIESMTIED-EYSGPKLEDGKVTISFMKELMQWYKDQKK---LHRK 185
Query: 89 QCKLIIEKSKKKATEEANII 108
I+ + K+ ++ + ++
Sbjct: 186 CAYQILVQVKEVLSKLSTLV 205
>3ivs_A Homocitrate synthase, mitochondrial; TIM barrel, metalloprotein,
transferase, claisen condensatio acid biosynthesis;
2.24A {Schizosaccharomyces pombe} PDB: 3ivt_A* 3ivu_A*
3mi3_A*
Length = 423
Score = 27.2 bits (61), Expect = 2.9
Identities = 12/38 (31%), Positives = 14/38 (36%)
Query: 37 IKALDDRKKKIADILAAANSEKEKVSYDRKRIQKELIA 74
IK L D + D + E D RI KE A
Sbjct: 386 IKKLADVRTLAMDDVDRVLREYHADLSDADRITKEASA 423
>3o2u_A NEDD8-conjugating enzyme UBC12; E2 conjugase, ligase; 2.00A
{Saccharomyces cerevisiae} PDB: 3tdi_C
Length = 190
Score = 26.2 bits (58), Expect = 4.1
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 44 KKKIADILAAANSEKEKVSYDRKRIQKEL 72
+KK ++S + +S R R++++L
Sbjct: 10 QKKKQKENENSSSIQPNLSAARIRLKRDL 38
>3a68_A Sferh-4, ferritin-4, chloroplastic; 4-helix bundle, iron storage,
CAGE-like protein, plant, iron, metal-binding,
oxidoreductase, plastid; 1.80A {Glycine max} PDB: 3a9q_A
Length = 212
Score = 25.4 bits (56), Expect = 8.6
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 8/43 (18%)
Query: 114 VEIIKQINIARENLHNEIVNLAIKSAEKILNNKITIEVNSSLL 156
V + Q ++AR+ +E E +N +I +E N S +
Sbjct: 28 VPTVPQASLARQKYVDES--------ESAVNEQINVEYNVSYV 62
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 0.353
Gapped
Lambda K H
0.267 0.0592 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,316,444
Number of extensions: 133108
Number of successful extensions: 413
Number of sequences better than 10.0: 1
Number of HSP's gapped: 409
Number of HSP's successfully gapped: 38
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 (21.6 bits)
S2: 53 (24.5 bits)