RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3889
(243 letters)
>2c0g_A ERP29 homolog, windbeutel protein; PDI-dbeta, PDI, protein
disulfide isomerase, PIPE, dorsal-ventral patterning,
chaperone, WIND mutants; 1.75A {Drosophila melanogaster}
SCOP: a.71.1.1 c.47.1.7 PDB: 1ovn_A 2c0f_A 2c1y_A 2c0e_A
Length = 248
Score = 154 bits (391), Expect = 1e-46
Identities = 76/239 (31%), Positives = 126/239 (52%), Gaps = 20/239 (8%)
Query: 20 SKGHVSLDTHNFDKILSKFHTTLVKFDIAYPYGAKHEAFLEVAESS-KHQPDFLVAEVGV 78
G V LD +F+K + +F ++VKFDIA PYG KHEAF ++S+ K D L+A VGV
Sbjct: 15 CTGCVDLDELSFEKTVERFPYSVVKFDIASPYGEKHEAFTAFSKSAHKATKDLLIATVGV 74
Query: 79 KDYGERDNEDLAKRGCLT----PQLLW-------AFCVADSLNKTLFILIIFFSS-IGIW 126
KDYGE +N+ L R + P + + ++ TL L F S+ ++
Sbjct: 75 KDYGELENKALGDRYKVDDKNFPSIFLFKGNADEYVQLPSHVDVTLDNLKAFVSANTPLY 134
Query: 127 IGAVGCLQDFDRLAKDFIRSASQERKTLLKSAEDLWDEIKTNSARKSAEFYVKTMRKLVE 186
IG GC+++F+ + K++ E+ L++ + +++ +++A Y+ MRK+ E
Sbjct: 135 IGRDGCIKEFNEVLKNYANIPDAEQLKLIEKLQAKQEQLTDPEQQQNARAYLIYMRKIHE 194
Query: 187 ISGEGSESEFLTREKARLKGLLNQKVSAQKKDELKSRMNILDSFA--LYVKSSGGRDEL 243
+ +FL E RL L KV+ KK+EL ++NIL+ F K++ ++EL
Sbjct: 195 VG-----YDFLEEETKRLLRLKAGKVTEAKKEELLRKLNILEVFRVHKVTKTAPEKEEL 248
>2qc7_A ERP31, ERP28, endoplasmic reticulum protein ERP29; B domain
(residues 33-153), D domain (residues 154-261), CHA;
2.90A {Homo sapiens} PDB: 1g7e_A 1g7d_A
Length = 240
Score = 128 bits (324), Expect = 7e-37
Identities = 82/240 (34%), Positives = 126/240 (52%), Gaps = 23/240 (9%)
Query: 17 LVLSKGHVSLDTHNFDKILSKFHTTLVKFDIAYPYGAKHEAFLEVAESSKHQPDFLVAEV 76
+V +KG + LDT F K++ K LVKFD YPYG K + F +AE+S D LVAEV
Sbjct: 1 MVHTKGALPLDTVTFYKVIPKSKFVLVKFDTQYPYGEKQDEFKRLAENSASSDDLLVAEV 60
Query: 77 GVKDYGERDNEDLAKRGCLT----PQLLWAFCVADSLN-------KTLFILIIFFSSIGI 125
G+ DYG++ N +L+++ L P F D N + + + G+
Sbjct: 61 GISDYGDKLNMELSEKYKLDKESYPVFYL-FRDGDFENPVPYTGAVKVGAIQRWLKGQGV 119
Query: 126 WIGAVGCLQDFDRLAKDFIRSASQE-RKTLLKSAEDLWDEIKTNSARKSAEFYVKTMRKL 184
++G GCL +D LA +FIR++ E R+ LLK +D +K + +K AE Y+K M K+
Sbjct: 120 YLGMPGCLPVYDALAGEFIRASGVEARQALLKQGQDNLSSVK-ETQKKWAEQYLKIMGKI 178
Query: 185 VEISGEGSESEFLTREKARLKGLL-NQKVSAQKKDELKSRMNILDSFALYVKSSGGRDEL 243
++ +F E R+ L+ K+S KK+EL+ +NIL +F K ++EL
Sbjct: 179 LD-----QGEDFPASEMTRIARLIEKNKMSDGKKEELQKSLNILTAFQ---KKGAEKEEL 230
>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 = 43.1 bits (101), Expect = 5e-05
Identities = 48/275 (17%), Positives = 83/275 (30%), Gaps = 82/275 (29%)
Query: 9 YFS--VTLFDLVLSKGHVSLDTHNFDKILSKFHTTLVKFDIAYPYGAKHEAFLEVAESSK 66
YF L+ V + LS+ T + + + G +LE S+
Sbjct: 169 YFEELRDLYQT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE-NPSNT 225
Query: 67 HQPDFLV-AEVGVKDYGERDNEDLAKRGCLTPQLLWAFCVADSLNKTLFILIIFFSSIGI 125
D+L+ + G + QL A L T L +
Sbjct: 226 PDKDYLLSIPISCPLIG------------VI-QLAHYVVTAKLLGFTPGELRSYLK---- 268
Query: 126 WIGAVGCLQDFDRLAKDFIRSASQERKTLLKSAEDLWDEIKTNSARKSAE--FYV----- 178
GA G Q + +A + + D W+ + RK+ F++
Sbjct: 269 --GATGHSQG--------LVTA------VAIAETDSWESFFVS-VRKAITVLFFIGVRCY 311
Query: 179 ----------KTMRKLVEISGEGSES-----EFLTREK--ARLKGLLNQKVSAQKKDELK 221
+ +E + EG S LT+E+ + N + A K+ E+
Sbjct: 312 EAYPNTSLPPSILEDSLE-NNEGVPSPMLSISNLTQEQVQDYVN-KTNSHLPAGKQVEI- 368
Query: 222 SRMNILDSF-------ALY--------VKSSGGRD 241
S +N + +LY K+ G D
Sbjct: 369 SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403
Score = 31.6 bits (71), Expect = 0.26
Identities = 17/112 (15%), Positives = 37/112 (33%), Gaps = 30/112 (26%)
Query: 28 THNFDKILSKFHTTLVKFDIAYPYGAKHEAFLEVAESSKHQPDFLVAEVGVKDYGERDNE 87
++ F + S FH+ L+ A ++ +++ F ++ + Y D
Sbjct: 417 SNRFLPVASPFHSHLLV-------PASDLINKDLVKNNV---SFNAKDIQIPVYDTFDGS 466
Query: 88 DLAK-RGCLTPQLL---------WAFCVADSLNKTLFILIIFF-----SSIG 124
DL G ++ +++ W I+ F S +G
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWETTTQFKATH-----ILDFGPGGASGLG 513
Score = 30.8 bits (69), Expect = 0.42
Identities = 33/160 (20%), Positives = 52/160 (32%), Gaps = 42/160 (26%)
Query: 22 GHVS-----LDTHNFDKILSKFHTTLVKFDIAYPYGAK-HEAFLEVAESSKHQPDFLVAE 75
G+VS FD++L+ L +F+ Y G H A A+ + LV
Sbjct: 66 GYVSSLVEPSKVGQFDQVLN---LCLTEFENCYLEGNDIH-AL--AAKLLQENDTTLVKT 119
Query: 76 VGV-KDY---GERDNEDLAKRGCLTPQLLWAFCVADSLNKTLFILIIFFSSIGIWIGAVG 131
+ K+Y K+ L A N L IF G G
Sbjct: 120 KELIKNYITARIMAKRPFDKKS--NSALFRA---VGEGNAQLVA--IF--------GGQG 164
Query: 132 CLQD-FDRLA----------KDFIRSASQERKTLLKSAED 160
D F+ L D I+ +++ L+++ D
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Score = 29.2 bits (65), Expect = 1.4
Identities = 18/108 (16%), Positives = 32/108 (29%), Gaps = 40/108 (37%)
Query: 148 SQER---KTLLKS---AEDLWDE----------------IKTN-----------SARKSA 174
SQE+ L K+ A+D+W+ + N ++
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIR 1685
Query: 175 EFYVKTMRKLVEISGEGSESEF--LTREKARL-----KGLLNQKVSAQ 215
E Y + + + +E F + KGLL+ Q
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQ 1733
>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 = 34.1 bits (77), Expect = 0.045
Identities = 31/177 (17%), Positives = 60/177 (33%), Gaps = 31/177 (17%)
Query: 55 HEAFLEVAESSKHQPDFL--VAEVGVKDYGERDNEDLAKRGCLTPQLLWAFCVADSLNKT 112
H E E D L + V ++ +D +D+ K ++ D+++ T
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 113 LFILIIFFSSIGIWIGAVGCLQDFDRLAKDFIRSASQERKTLLKSAEDLWDEIKTNSARK 172
L + L + + + F+ L + + L IKT +
Sbjct: 65 LRLFWTL-------------LSKQEEMVQKFVEEV------LRINYKFLMSPIKTEQRQP 105
Query: 173 SA--EFYVKTMRKLVEISGEGSESEFLTREKARLKGLLNQKVSAQKKDELKSRMNIL 227
S Y++ +L + ++R + LK L Q + EL+ N+L
Sbjct: 106 SMMTRMYIEQRDRLYN-DNQVFAKYNVSRLQPYLK--LRQALL-----ELRPAKNVL 154
Score = 29.8 bits (66), Expect = 1.1
Identities = 32/215 (14%), Positives = 62/215 (28%), Gaps = 66/215 (30%)
Query: 5 ICTLYFSVTLFDLVLSKGHVSLDTHN--FDK-----ILSKFHTTLVKFDIAYPYGAKHEA 57
+ T + VT F + H+SLD H+ +L K+ D+ P E
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY-LDCRPQDL--P----REV 322
Query: 58 FLEVAESSKHQPDFLVAEVG--VKDYGER-------DNEDLAKR-----GCLTPQLLWAF 103
P ++ + ++D + + L L P
Sbjct: 323 -------LTTNP-RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY--- 371
Query: 104 CVADSLNKTLFI-LIIFFSSIGI--------WIGAVGCLQDFDRLAKDFIRS--ASQERK 152
+ +F L +F S I W + D + + ++ K
Sbjct: 372 -------RKMFDRLSVFPPSAHIPTILLSLIWFDVIK--SDVMVVVNKLHKYSLVEKQPK 422
Query: 153 TLLKSAEDLWDEIKTNSARKSAEFYVKTM-RKLVE 186
S ++ E+K + + R +V+
Sbjct: 423 ESTISIPSIYLELKVKLENE------YALHRSIVD 451
Score = 28.7 bits (63), Expect = 2.0
Identities = 12/75 (16%), Positives = 27/75 (36%), Gaps = 16/75 (21%)
Query: 4 WICTLYFSVTLFDLVLSKGHVSLDTHNFDKILS---KF------------HTTLVKFDIA 48
W + TL L K ++ + ++++++ F +T L++ +
Sbjct: 514 WNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALM 573
Query: 49 YPYGAKH-EAFLEVA 62
A EA +V
Sbjct: 574 AEDEAIFEEAHKQVQ 588
>1mek_A Protein disulfide isomerase; electron transport, redox-active
center, endoplasmic reticulum; NMR {Homo sapiens} SCOP:
c.47.1.2
Length = 120
Score = 28.8 bits (65), Expect = 0.66
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 24 VSLDTHNFDKILSKFHTTLVKF 45
+ L NF + L+ LV+F
Sbjct: 10 LVLRKSNFAEALAAHKYLLVEF 31
>3qf7_D MRE11; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga
maritima}
Length = 50
Score = 27.0 bits (59), Expect = 1.0
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 135 DFDRLAKDFIRSASQERKTLLKSAEDLWDEIKTNSA 170
D+ L K++++ + + LLK ++L DE+K + A
Sbjct: 8 DYFELFKEYLKKREENHEKLLKILDELLDEVKKSEA 43
>2dj1_A Protein disulfide-isomerase A4; protein ERP-72, ERP72, CAI,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 140
Score = 28.1 bits (63), Expect = 1.4
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 24 VSLDTHNFDKILSKFHTTLVKF 45
L+ NFD ++ T L++F
Sbjct: 20 WVLNDGNFDNFVADKDTVLLEF 41
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 29.2 bits (66), Expect = 1.6
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 197 LTREKARLKGLLNQKVSAQKKDELKSRMNILDSFALYVKSSGGRDE 242
L +E +L+ LN+ S K+ +L R+ +L++F SG + E
Sbjct: 194 LEQECEQLREELNETNSETKRKKLTKRIKLLEAF----VQSGNKPE 235
>2raw_B Borealin; cell cycle, dasrab, chromosomal passender complex, IAP,
BIR, apoptosis, cell division, centromere, chromosomal
protein, binding, mitosis; 2.40A {Homo sapiens} PDB:
2rax_B
Length = 68
Score = 26.6 bits (58), Expect = 1.8
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 133 LQDFDRLAKDFIRSASQERKTLLKSAEDLWD 163
L+DFDR + I+ +R+ LLK ++L++
Sbjct: 7 LKDFDREVEIRIKQIESDRQNLLKEVDNLYN 37
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 1.9
Identities = 8/61 (13%), Positives = 25/61 (40%), Gaps = 8/61 (13%)
Query: 144 IRSASQERKTLLK----SAEDLWDEIKTNSARKSAEFYVK---TMRKLVEISGEGSESEF 196
IR +E++ L+ +++ + E + + + E+ + + K + ++ F
Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI-ADKAF 145
Query: 197 L 197
Sbjct: 146 Y 146
>2qfa_B Borealin; three-helical-bundle, long helix, protein complex,
alternative splicing, apoptosis, cell cycle, cell
division; HET: MES; 1.40A {Homo sapiens}
Length = 62
Score = 26.6 bits (58), Expect = 2.0
Identities = 11/31 (35%), Positives = 20/31 (64%)
Query: 133 LQDFDRLAKDFIRSASQERKTLLKSAEDLWD 163
L+DFDR + I+ +R+ LLK ++L++
Sbjct: 11 LKDFDREVEIRIKQIESDRQNLLKEVDNLYN 41
>3us3_A Calsequestrin-1; calcium-binding protein; 1.74A {Oryctolagus
cuniculus} PDB: 1a8y_A 3trq_A* 3trp_A* 3uom_A
Length = 367
Score = 28.0 bits (62), Expect = 2.9
Identities = 7/60 (11%), Positives = 18/60 (30%), Gaps = 7/60 (11%)
Query: 24 VSLDTHNFDKILSKFHTTLVKF-------DIAYPYGAKHEAFLEVAESSKHQPDFLVAEV 76
++++ N+ + K+ + + + E LE+A V
Sbjct: 16 INVNAKNYKNVFKKYEVLALLYHEPPEDDKASQRQFEMEELILELAAQVLEDKGVGFGLV 75
>1bwv_A Rubisco, protein (ribulose bisphosphate carboxylase); carbon
dioxide fixation, complex (rubisco-reaction intermedi
high specificity factor; HET: KCX CAP; 2.40A {Galdieria
partita} SCOP: c.1.14.1 d.58.9.1 PDB: 1iwa_A 1bxn_A
Length = 493
Score = 27.8 bits (61), Expect = 3.6
Identities = 12/43 (27%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 126 WIGAVGCLQDFDRLAKDFIRSASQERKTLLKSAEDLWDEIKTN 168
I A +D+ + +R A++ L ++A DLW +I N
Sbjct: 435 MILARNENRDYLTEGPEILREAAKTCGAL-RTALDLWKDITFN 476
>3idv_A Protein disulfide-isomerase A4; thioredoxin-like fold, disulfide
bond, endoplasmic reticulum isomerase, redox-active
center; 1.95A {Homo sapiens} PDB: 2dj2_A
Length = 241
Score = 27.1 bits (60), Expect = 4.9
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 24 VSLDTHNFDKILSKFHTTLVKF 45
+ L+ NFD ++ T L++F
Sbjct: 18 LVLNDANFDNFVADKDTVLLEF 39
>2b5e_A Protein disulfide-isomerase; 2.40A {Saccharomyces cerevisiae}
SCOP: c.47.1.2 c.47.1.2 c.47.1.2 c.47.1.2 PDB: 3boa_A
Length = 504
Score = 27.1 bits (59), Expect = 6.9
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 24 VSLDTHNFDKILSKFHTTLVKF 45
V L T +F++ + L +F
Sbjct: 17 VKLATDSFNEYIQSHDLVLAEF 38
>3ug9_A Archaeal-type opsin 1, archaeal-type opsin 2; microbialrhodopsin,
seven-transmembrane, light-gated cation membrane
protein; HET: RET OLA; 2.30A {Chlamydomonas reinhardtii}
Length = 333
Score = 26.4 bits (57), Expect = 9.1
Identities = 3/23 (13%), Positives = 10/23 (43%)
Query: 101 WAFCVADSLNKTLFILIIFFSSI 123
+ D ++K + L+ + +
Sbjct: 263 VGHTIIDLMSKNCWGLLGHYLRV 285
>1m0k_A BR, bacteriorhodopsin; ION pump, membrane protein, retinal protein,
lipids, photore haloarchaea, 7-transmembrane,
serpentine; HET: RET LI1 SQU; 1.43A {Halobacterium
salinarum} SCOP: f.13.1.1 PDB: 1m0l_A* 1m0m_A* 2zfe_A*
2zzl_A* 1p8h_A* 1o0a_A* 1py6_A* 1r2n_A* 1ucq_A* 1vjm_A*
2ntu_A* 2ntw_A* 3har_A* 1c8r_A* 2wjk_A* 2wjl_A* 2i21_A*
1p8i_A* 1p8u_A* 3han_A* ...
Length = 262
Score = 26.2 bits (57), Expect = 9.9
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 101 WAFCVADSLNKTLFILIIFFS 121
F V D K F LI+ S
Sbjct: 219 LLFMVLDVSAKVGFGLILLRS 239
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
0.321 0.136 0.395
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,510,244
Number of extensions: 198199
Number of successful extensions: 454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 35
Length of query: 243
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,160,982
Effective search space: 632469264
Effective search space used: 632469264
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: 56 (25.7 bits)