RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1645
(143 letters)
>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles,
endocytosis, SELF- assembly, alpha-alpha superhelix;
2.60A {Bos taurus} SCOP: a.118.1.3
Length = 449
Score = 145 bits (367), Expect = 9e-43
Identities = 69/95 (72%), Positives = 88/95 (92%)
Query: 42 YVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYL 101
+ RCNEP VWSQLAKAQLQKG+VKE+IDS+IKADDPS+YM+VV+ ++ + +WE+LV+YL
Sbjct: 25 FAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYL 84
Query: 102 QMARKKARESYIESELIYAYARTNRLADLEEFISG 136
QMARKKARESY+E+ELI+A A+TNRLA+LEEFI+G
Sbjct: 85 QMARKKARESYVETELIFALAKTNRLAELEEFING 119
>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus} PDB: 3lvh_A
Length = 624
Score = 144 bits (365), Expect = 1e-41
Identities = 69/95 (72%), Positives = 88/95 (92%)
Query: 42 YVLRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYL 101
+ RCNEP VWSQLAKAQLQKG+VKE+IDS+IKADDPS+YM+VV+ ++ + +WE+LV+YL
Sbjct: 47 FAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYL 106
Query: 102 QMARKKARESYIESELIYAYARTNRLADLEEFISG 136
QMARKKARESY+E+ELI+A A+TNRLA+LEEFI+G
Sbjct: 107 QMARKKARESYVETELIFALAKTNRLAELEEFING 141
>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller,
endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP:
i.23.1.1 PDB: 1xi5_A 3iyv_A
Length = 1630
Score = 127 bits (321), Expect = 3e-35
Identities = 73/135 (54%), Positives = 98/135 (72%), Gaps = 3/135 (2%)
Query: 4 CTEPATHNALAKIYIDSNNNPE--RFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQ 61
I+ + N + L + + L + + RCNEP VWSQLAKAQLQ
Sbjct: 1059 AISNELFEEAFAIFRKFDVNTSAVQVLIEHIGN-LDRAYEFAERCNEPAVWSQLAKAQLQ 1117
Query: 62 KGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKARESYIESELIYAY 121
KG+VKE+IDS+IKADDPS+YM+VV+ ++ + +WE+LV+YLQMARKKARESY+E+ELI+A
Sbjct: 1118 KGMVKEAIDSYIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFAL 1177
Query: 122 ARTNRLADLEEFISG 136
A+TNRLA+LEEFI+G
Sbjct: 1178 AKTNRLAELEEFING 1192
Score = 47.7 bits (113), Expect = 3e-07
Identities = 24/26 (92%), Positives = 25/26 (96%)
Query: 4 CTEPATHNALAKIYIDSNNNPERFLK 29
C EPATHNALAKIYIDSNNNPERFL+
Sbjct: 870 CEEPATHNALAKIYIDSNNNPERFLR 895
>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 = 32.1 bits (72), Expect = 0.046
Identities = 20/132 (15%), Positives = 41/132 (31%), Gaps = 34/132 (25%)
Query: 5 TEPATHNALAKIYIDSNNN--PERFLKFFLVDHLSKTPFYV------LRCNEPGVWSQLA 56
T + L K Y+D P L P + +R + W
Sbjct: 299 TPDEVKSLLLK-YLDCRPQDLPREVLTT--------NPRRLSIIAESIR-DGLATWDNWK 348
Query: 57 KAQLQKGLVKESIDSFIKADDPS----AYMDVV---ETSHATES-----WEDLVRY--LQ 102
K + I+S + +P+ + + ++H W D+++ +
Sbjct: 349 HVNCDK--LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 103 MARKKARESYIE 114
+ K + S +E
Sbjct: 407 VVNKLHKYSLVE 418
Score = 29.8 bits (66), Expect = 0.33
Identities = 17/109 (15%), Positives = 36/109 (33%), Gaps = 13/109 (11%)
Query: 6 EPATHNALAKIYIDSNNNPERFLKFFLVDHLSKTPFYVLRCNEPGVWSQLAKAQLQKGLV 65
+ +++ + E ++ F+ + VLR N + S + Q Q ++
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEE--------VLRINYKFLMSPIKTEQRQPSMM 108
Query: 66 KESIDSFIKADDPSAYMDVVETSHATESWEDLVRYLQMARKKAR-ESYI 113
+I+ D Y D + S L+ A + R +
Sbjct: 109 TR---MYIEQRDR-LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
>1ex2_A Protein MAF; structural genomics, PSI, protein structure
initiative, midwest center for structural genomics,
MCSG; HET: SUC PO4; 1.85A {Bacillus subtilis} SCOP:
c.51.4.2 PDB: 1exc_A*
Length = 189
Score = 26.6 bits (60), Expect = 2.7
Identities = 9/28 (32%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 83 DVVETSHATESWEDLVRYLQMARKKARE 110
+V E + S E+ V++L A++KA+
Sbjct: 31 EVEEKLNRNFSPEENVQWL--AKQKAKA 56
>2amh_A Septum formation protein MAF homologue, putative; domain alpha-beta
motif, structural genomics, PSI, protein structure
initiative; 2.00A {Trypanosoma brucei} SCOP: c.51.4.2
Length = 207
Score = 26.4 bits (59), Expect = 3.2
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 83 DVVETSHATESWEDLVRYLQMARKKARE 110
D+ E ++ +L + AR K +
Sbjct: 42 DIDEKAYRAADPFELTESI--ARAKMKA 67
>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting
complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin,
ubiquitin ligase, twinning; 2.80A {Homo sapiens}
Length = 330
Score = 25.7 bits (57), Expect = 6.2
Identities = 7/40 (17%), Positives = 13/40 (32%), Gaps = 5/40 (12%)
Query: 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAY 81
+S + G + ++D F A DD +
Sbjct: 268 QNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSV 307
>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin
ligase; 2.60A {Schizosaccharomyces pombe}
Length = 597
Score = 26.0 bits (57), Expect = 6.7
Identities = 7/40 (17%), Positives = 16/40 (40%), Gaps = 5/40 (12%)
Query: 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKA-----DDPSAY 81
N+ V + +A L K + +I ++ ++ A
Sbjct: 548 NDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMAS 587
>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 814
Score = 25.8 bits (57), Expect = 7.4
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 47 NEPGVWSQLAKAQLQKGLVKESIDSFIKADD 77
+ W L A LQ+ K +I++F A D
Sbjct: 679 SAEMKWRALGDASLQRFNFKLAIEAFTNAHD 709
>2dbn_A Hypothetical protein YBIU; alpha/beta structure, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 1.70A {Escherichia coli} PDB:
2dbi_A 2csg_A*
Length = 461
Score = 25.5 bits (55), Expect = 8.0
Identities = 12/58 (20%), Positives = 20/58 (34%)
Query: 44 LRCNEPGVWSQLAKAQLQKGLVKESIDSFIKADDPSAYMDVVETSHATESWEDLVRYL 101
L+ VW L+ A ++ G V IK + A + ++ YL
Sbjct: 93 LKAQGDAVWPVLSYADIKAGHVTAEQREQIKRRGCAVIKGHFPREQALGWDQSMLDYL 150
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 0.133 0.388
Gapped
Lambda K H
0.267 0.0556 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,213,950
Number of extensions: 116590
Number of successful extensions: 295
Number of sequences better than 10.0: 1
Number of HSP's gapped: 295
Number of HSP's successfully gapped: 28
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
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 (21.8 bits)
S2: 52 (24.2 bits)