RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5165
(169 letters)
>1vd2_A Protein kinase C, IOTA type; PB1 domain, OPCA motif, APKC, ZIP/P62,
MEK5, molecular recognition, transferase; NMR {Homo
sapiens} SCOP: d.15.2.2 PDB: 1wmh_A
Length = 89
Score = 101 bits (252), Expect = 7e-29
Identities = 38/71 (53%), Positives = 57/71 (80%)
Query: 88 SEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLY 147
++ IT+ +P I+++ L EV++MC F +Q+FT+KW+DEEGDPC +S+Q+ELEEA RLY
Sbjct: 15 GDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWIDEEGDPCTVSSQLELEEAFRLY 74
Query: 148 EVNHEPELVIH 158
E+N + EL+IH
Sbjct: 75 ELNKDSELLIH 85
Score = 31.8 bits (72), Expect = 0.022
Identities = 14/21 (66%), Positives = 18/21 (85%)
Query: 1 MELEEAIRLYEVNHEPELVIH 21
+ELEEA RLYE+N + EL+IH
Sbjct: 65 LELEEAFRLYELNKDSELLIH 85
>2ktr_A Sequestosome-1; autophagy, NF-KB signaling, HOMO-oligomer, PB1
dimer, signaling protein, transport protein; NMR {Rattus
norvegicus}
Length = 117
Score = 37.8 bits (87), Expect = 3e-04
Identities = 11/45 (24%), Positives = 16/45 (35%)
Query: 100 TYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAI 144
+RL V + F + E GD S+ EL A+
Sbjct: 58 PSERLLSRVAVLFPALRPGGFQAHYRAERGDLVAFSSDEELTMAM 102
>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 = 38.0 bits (87), Expect = 4e-04
Identities = 8/24 (33%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 139 ELEEAIRLYEVNHEPELVIHGKST 162
+L+ +++LY + P L I K+T
Sbjct: 24 KLQASLKLYADDSAPALAI--KAT 45
Score = 37.2 bits (85), Expect = 7e-04
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 2 ELEEAIRLYEVNHEPELVIHGNL 24
+L+ +++LY + P L I +
Sbjct: 24 KLQASLKLYADDSAPALAIKATM 46
>2kkc_A Sequestosome-1; P62, PB1, autophagy, ubiquitin-proteasome system,
NF-KB signaling, alternative splicing, apoptosis,
cytoplasm, differentiation; NMR {Rattus norvegicus} PDB:
2ktr_B
Length = 102
Score = 35.4 bits (81), Expect = 0.001
Identities = 11/44 (25%), Positives = 16/44 (36%)
Query: 101 YDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAI 144
+RL V + F + E GD S+ EL A+
Sbjct: 44 CERLLSRVAVLFPALRPGGFQAHYRAERGDLVAFSSDEELTMAM 87
>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 = 36.4 bits (83), Expect = 0.003
Identities = 18/125 (14%), Positives = 43/125 (34%), Gaps = 25/125 (20%)
Query: 50 IVWQYSRKLQHRELV-----RKKRSYCKFLHISFTLHCYFIIFSEVFITYIKPDITYDRL 104
I+ L +++ KF+ ++ Y + S + +P +
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-YKFLMSPIKTEQRQPSMMTRMY 112
Query: 105 QEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIR--LYEVNHEPELVIH---- 158
E+ + ++ +QVF V ++++ +R L E+ ++I
Sbjct: 113 IEQRDRL--YNDNQVFAKYNV----------SRLQPYLKLRQALLELRPAKNVLIDGVLG 160
Query: 159 -GKST 162
GK+
Sbjct: 161 SGKTW 165
Score = 32.5 bits (73), Expect = 0.070
Identities = 19/125 (15%), Positives = 36/125 (28%), Gaps = 30/125 (24%)
Query: 52 WQYSRKLQHRELVRKKRSYCKFLHISFTLHCY--FIIFSE-VFITYIK-----PDITYDR 103
W + + +L S L + + +F I I D+
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 104 LQEEVKEMCKFSTDQVFTVKWVDEEGDPCLISTQMELEEAIRLYEVNHEPELVIHGKSTY 163
+ V ++ K+S L+ Q + E I + + L + K
Sbjct: 404 VMVVVNKLHKYS-----------------LVEKQPK-ESTISIPSI----YLELKVKLEN 441
Query: 164 LISLH 168
+LH
Sbjct: 442 EYALH 446
Score = 27.1 bits (59), Expect = 3.2
Identities = 5/23 (21%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 2 ELEEAIR--LYEVNHEPELVIHG 22
+ +R L E+ ++I G
Sbjct: 135 QPYLKLRQALLELRPAKNVLIDG 157
>1wj6_A KIAA0049 protein, RSGI RUH-024; PB1 domain, protein binding,
structural genomics, riken structural
genomics/proteomics initiative; NMR {Homo sapiens} SCOP:
d.15.2.2
Length = 101
Score = 34.5 bits (78), Expect = 0.003
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 3/70 (4%)
Query: 77 SFTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTVKWVDEEGDPCLIST 136
TL+ F + F+ + T+ ++ VK +T Q+ K++DEE + I++
Sbjct: 14 QVTLNVTFKNEIQSFLVSDPENTTWADIEAMVKVSFDLNTIQI---KYLDEENEEVSINS 70
Query: 137 QMELEEAIRL 146
Q E EEA+++
Sbjct: 71 QGEYEEALKM 80
>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 = 35.4 bits (81), Expect = 0.006
Identities = 29/168 (17%), Positives = 57/168 (33%), Gaps = 70/168 (41%)
Query: 2 ELEEAIRLYEVN-HEPE--------------LVIHGNLWTWQWWNKFWRTWAPVPTLFGI 46
++++ + + N H P LV+ G P +L+G+
Sbjct: 348 QVQDYVN--KTNSHLPAGKQVEISLVNGAKNLVVSG----------------PPQSLYGL 389
Query: 47 TIFIVWQYSRKL-------QHRELV--RKKRSYCKFLHIS--FTLHCYF------IIFSE 89
+ + RK Q R RK + +FL ++ F H + +I +
Sbjct: 390 NLTL-----RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF--HSHLLVPASDLINKD 442
Query: 90 VF---ITYIKPDI------TYD--RLQEEVKEMCKFSTDQVFT--VKW 124
+ +++ DI T+D L+ + + D + VKW
Sbjct: 443 LVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
>1q1o_A Cell division control protein 24; PB1 domain, PCCR, PC motif, OPCA
motif, yeast, cell polarity, protein-protein
interaction; NMR {Saccharomyces cerevisiae} SCOP:
d.15.2.2 PDB: 2kfj_A 2kfk_B
Length = 98
Score = 31.1 bits (70), Expect = 0.045
Identities = 17/88 (19%), Positives = 35/88 (39%), Gaps = 4/88 (4%)
Query: 74 LHISFTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFST----DQVFTVKWVDEEG 129
IS+ + SE+F ++ +D L + + + +K+ DE+G
Sbjct: 8 FRISYNNNSNNTSSSEIFTLLVEKVWNFDDLIMAINSKISNTHNNNISPITKIKYQDEDG 67
Query: 130 DPCLISTQMELEEAIRLYEVNHEPELVI 157
D ++ + + A + N+E L I
Sbjct: 68 DFVVLGSDEDWNVAKEMLAENNEKFLNI 95
>2bkf_A Zinc-finger protein NBR1 (NEXT to breast cancer 1; PB1 domain,
interaction domain, Z finger; 1.56A {Homo sapiens} SCOP:
d.15.2.2 PDB: 2g4s_A
Length = 87
Score = 29.9 bits (66), Expect = 0.11
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 100 TYDRLQEEVKEMCKFSTDQ-VFTVKWVDEEGDPCLISTQMELEEAIRL 146
+ +++ M K S D +K++DEE + I++Q E EEA+++
Sbjct: 25 PENTTWADIEAMVKVSFDLNTIQIKYLDEENEEVSINSQGEYEEALKM 72
>1pqs_A Cell division control protein 24; alpha and beta protein, cell
cycle; NMR {Saccharomyces cerevisiae} SCOP: d.15.2.2
PDB: 1tz1_A
Length = 77
Score = 29.0 bits (65), Expect = 0.18
Identities = 15/74 (20%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 88 SEVFITYIKPDITYDRLQEEVKEMCKFST----DQVFTVKWVDEEGDPCLISTQMELEEA 143
SE+F ++ +D L + + + +K+ DE+GD ++ + + A
Sbjct: 1 SEIFTLLVEKVWNFDDLIMAINSKISNTHNNNISPITKIKYQDEDGDFVVLGSDEDWNVA 60
Query: 144 IRLYEVNHEPELVI 157
+ N+E L I
Sbjct: 61 KEMLAENNEKFLNI 74
>1syy_A Ribonucleoside-diphosphate reductase beta chain; DIIRON, oxygen
activation, iron coupled radical, immune EVAS
replication, oxidoreductase; 1.70A {Chlamydia
trachomatis} SCOP: a.25.1.2 PDB: 4d8g_A 4d8f_A 2ani_A
Length = 346
Score = 27.3 bits (61), Expect = 2.8
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 79 TLHCYFIIFSEVFITYIK--PDITYDRLQEEVKEMCK 113
T+H F I ++ + P+I LQ+E+ E+ K
Sbjct: 228 TIHLNFGI--DLINGIKEENPEIWTPELQQEIVELIK 262
>1fo8_A Alpha-1,3-mannosyl-glycoprotein beta-1,2-N-
acetylglucosaminyltransferase; methylmercury derivative,
N- acetylglucosaminyltransferase I; 1.40A {Oryctolagus
cuniculus} SCOP: c.68.1.10 PDB: 1fo9_A 1foa_A* 2apc_A*
2am3_A* 2am4_A* 2am5_A*
Length = 343
Score = 27.0 bits (59), Expect = 3.9
Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 9/84 (10%)
Query: 25 WTWQWWNKFWRTWAPVPTLFGITIFIVWQYSRKLQHRELVRKKRSYCK-------FLHIS 77
W + W P ++ RK R VR + S
Sbjct: 165 LGWLLLAELWAELEPKWPKAFWDDWMRRPEQRK--GRACVRPEISRTMTFGRKGVSHGQF 222
Query: 78 FTLHCYFIIFSEVFITYIKPDITY 101
F H FI ++ F+ + + D++Y
Sbjct: 223 FDQHLKFIKLNQQFVPFTQLDLSY 246
>2xq0_A LTA-4 hydrolase, leukotriene A-4 hydrolase; HET: BES; 1.96A
{Saccharomyces cerevisiae} PDB: 2xpz_A* 2xpy_A*
Length = 632
Score = 26.7 bits (59), Expect = 5.2
Identities = 9/25 (36%), Positives = 12/25 (48%), Gaps = 7/25 (28%)
Query: 17 ELVIH-------GNLWTWQWWNKFW 34
+++ H GNL T WN FW
Sbjct: 297 DVIAHELAHSWSGNLVTNCSWNHFW 321
>3b7s_A Leukotriene A-4 hydrolase; transition state, analogue peptide,
hydrolysis, hydrolase, leukotriene biosynthesis,
metal-binding, metalloprotease; 1.47A {Homo sapiens}
SCOP: a.118.1.7 b.98.1.1 d.92.1.13 PDB: 3b7t_A 3b7r_L*
2r59_A* 3b7u_X* 3fun_A* 1hs6_A* 2vj8_A* 3fh7_A* 3fh8_A*
3fhe_A* 3fts_A* 3ftu_A* 3ftv_A* 3ftw_A* 3ftx_A* 3fty_A*
3ftz_A* 3fu0_A* 3fu3_A* 3fu5_A* ...
Length = 616
Score = 26.3 bits (58), Expect = 6.9
Identities = 8/25 (32%), Positives = 12/25 (48%), Gaps = 7/25 (28%)
Query: 17 ELVIH-------GNLWTWQWWNKFW 34
++ H GNL T + W+ FW
Sbjct: 297 NVIAHQISHSWTGNLVTNKTWDHFW 321
>1fm2_B Glutaryl 7-aminocephalosporanic acid acylase; cephalosporin
acylase, antibiotics, penicillin acylase, N- terminal
hydrolase; 2.00A {Brevundimonas diminuta} SCOP:
d.153.1.2 PDB: 1jvz_B* 1jw0_B 3jtq_B 1ghd_B 1gk0_B
1gk1_B 2ae4_B 3jtr_B 2ae5_B 2ae3_B 1or0_B 2adv_C 2adv_B
Length = 520
Score = 25.9 bits (57), Expect = 7.1
Identities = 3/22 (13%), Positives = 6/22 (27%)
Query: 25 WTWQWWNKFWRTWAPVPTLFGI 46
+ ++ VP G
Sbjct: 408 RPFGDASRMILNDVNVPGAAGY 429
>1ehy_A Protein (soluble epoxide hydrolase); alpha/beta hydrolase fold,
epoxide degradation, epichlorohydrin; 2.10A
{Agrobacterium tumefaciens} SCOP: c.69.1.11
Length = 294
Score = 26.1 bits (58), Expect = 7.3
Identities = 5/29 (17%), Positives = 11/29 (37%)
Query: 16 PELVIHGNLWTWQWWNKFWRTWAPVPTLF 44
E+V +++ F+ W+ L
Sbjct: 162 VEVVGSSREVCKKYFKHFFDHWSYRDELL 190
>3cia_A Cold-active aminopeptidase; psychrohilic, hydrolase; 2.70A
{Colwellia psychrerythraea}
Length = 605
Score = 25.9 bits (57), Expect = 7.4
Identities = 8/25 (32%), Positives = 10/25 (40%), Gaps = 7/25 (28%)
Query: 17 ELVIH-------GNLWTWQWWNKFW 34
L+ H GNL T + W W
Sbjct: 296 NLIAHELAHSWSGNLVTNESWRDLW 320
>3oy2_A Glycosyltransferase B736L; rossmann fold, GDP-mannose, sugar, VIRU
proteins, viral protein,transferase; 2.31A {Paramecium
bursaria chlorella virus NY} PDB: 3oy7_A*
Length = 413
Score = 25.9 bits (56), Expect = 8.3
Identities = 11/123 (8%), Positives = 35/123 (28%), Gaps = 3/123 (2%)
Query: 4 EEAIRLYEVNHEPELVIHGNLWTWQWWNKFWRTWAPVPTLFGITIFIVWQYSRKLQHREL 63
+ + H+P++V+ N T + + +V + R+ +
Sbjct: 70 YSGLSEFIDVHKPDIVMIYNDPIVIGNYLLAMGKCSHRTKIVLYVDLVSKNIRE--NLWW 127
Query: 64 VRKKRSYCKFLHIS-FTLHCYFIIFSEVFITYIKPDITYDRLQEEVKEMCKFSTDQVFTV 122
+ + +S + +V I + + + + K + +
Sbjct: 128 IFSHPKVVGVMAMSKCWISDICNYGCKVPINIVSHFVDTKTIYDARKLVGLSEYNDDVLF 187
Query: 123 KWV 125
+
Sbjct: 188 LNM 190
>2rcc_A Ribonucleoside-diphosphate reductase subunit beta; NP_241368.1,
putative class I ribonucleotide reductase,
ribonucleotide reductase; HET: MSE PGE PG4; 1.90A
{Bacillus halodurans c-125}
Length = 346
Score = 25.7 bits (57), Expect = 9.7
Identities = 7/37 (18%), Positives = 13/37 (35%), Gaps = 4/37 (10%)
Query: 79 TLHCYFIIFSEVFITYIK--PDITYDRLQEEVKEMCK 113
LH Y +F + P++ + + VK
Sbjct: 221 QLHVYLFT--NIFKELLVEFPELNTEETKTFVKTTLM 255
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
0.325 0.140 0.467
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,804,327
Number of extensions: 159117
Number of successful extensions: 580
Number of sequences better than 10.0: 1
Number of HSP's gapped: 577
Number of HSP's successfully gapped: 42
Length of query: 169
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 82
Effective length of database: 4,272,666
Effective search space: 350358612
Effective search space used: 350358612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.6 bits)