RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10370
(280 letters)
>2exn_A Hypothetical protein BOR11; beta barrel containing fold,
autostructure, autoassign, structure, structural
genomics, PSI; NMR {Bordetella bronchiseptica} SCOP:
b.165.1.1
Length = 136
Score = 53.3 bits (128), Expect = 3e-09
Identities = 17/116 (14%), Positives = 41/116 (35%), Gaps = 6/116 (5%)
Query: 1 EVQDGCLEDRSFVLFNEKEKNFISSKKFNHLLLIQTEYMGGGAFQFSVYNQPSYEKLTIQ 60
+ + +++ N+ +++ L + E G V P +L I
Sbjct: 16 TQSEAAAYQKRWLVAND-AGQWLNRDLCPRLAEVSVELRMGY----LVLKAPGMLRLDIP 70
Query: 61 VADILQTSHTKSFTLYVDEVLEAFDCGDLASDWFAKYLLNQSDRSIRLGLSTNRRR 116
+ I + L ++ ++ D G+LA+ W + + R +++ R
Sbjct: 71 LDVIEDDDSVRYQMLVGEQTVDVVDEGELAAAWISNH-AGVPCRILKVHPDMAEVR 125
>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 = 50.2 bits (119), Expect = 4e-07
Identities = 47/281 (16%), Positives = 91/281 (32%), Gaps = 65/281 (23%)
Query: 16 NEKEKNFISSKKFNHLLLIQTEYMGGGAFQFSVYNQPSYEKLTIQ-----------VADI 64
+ + + SK + + LL+ V N ++ + V D
Sbjct: 231 QAELRRLLKSKPYENCLLVLLN----------VQNAKAWNAFNLSCKILLTTRFKQVTDF 280
Query: 65 LQTSHTKSFTLYVDEVLEAFDCGDLASDWFAKYLLNQSDRSIRLGLSTNRRR--SIGDNY 122
L + T +L D D KYL + R L+TN RR I ++
Sbjct: 281 LSAATTTHISL--DHHSMTLT-PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES- 336
Query: 123 LRKYTTVYDN---VNDEDIGVYADMTSYMVLNENSLRDLNKKMSDIGVEDVSMLQFRGNI 179
+R +DN VN + + + S VL R + ++S + +I
Sbjct: 337 IRDGLATWDNWKHVNCDKLTTIIES-SLNVLEPAEYRKMFDRLS-VFPPSA-------HI 387
Query: 180 VVDGPPSYAEDTW-DWVRFNSDVIT----------RQVKPCTRCILTTVHPDTGRKQPDS 228
P W D ++ + V+ +Q K + + +++ + K +
Sbjct: 388 ----PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE-STISIPSIYLELKVKLENE 442
Query: 229 QPL--KMLQMYRAVPDLERRKVENFAPM-----FGVYMGVH 262
L ++ Y + ++ P F ++G H
Sbjct: 443 YALHRSIVDHYNI---PKTFDSDDLIPPYLDQYFYSHIGHH 480
Score = 41.0 bits (95), Expect = 3e-04
Identities = 44/338 (13%), Positives = 90/338 (26%), Gaps = 113/338 (33%)
Query: 3 QDGCLEDRSFVLFNEKEKNFISSKKFNHLLLIQTEYMGGGAFQFSVYNQPSYEKLTIQVA 62
+D +++ + K+ +S ++ +H++ T+++
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHII-----------------MSKDAVSGTLRLF 68
Query: 63 DILQTSHTKSFTLYVDEVLEAFDCGDLASDWFAKYLLNQSDRSIRLGLSTNRRRSIGDN- 121
L + + +V+EVL + L S K Q R+ + R R DN
Sbjct: 69 WTLLSKQEEMVQKFVEEVLRI-NYKFLMSPI--KTEQRQPSMMTRMYIEQ-RDRLYNDNQ 124
Query: 122 ----Y----------LRK---------YTTVY------------DNVNDEDI------GV 140
Y LR+ + D + +
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 141 YADMTSYMVL-NENSLRDLNKKMSDIGVEDVSMLQFRGNIVVDGP--------------- 184
+ ++ L N NS + + + + + R + +
Sbjct: 185 F-----WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 185 -PSYAE------DTWD---WVRFNSD----VITR------QVKPCTRCILTTVHPDTGRK 224
Y + + W FN + TR + T ++ H
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 225 QPDSQPL--KMLQMYRAVPDLERRKVENFAP----MFG 256
+ + L K L DL R+V P +
Sbjct: 300 PDEVKSLLLKYLDC--RPQDL-PREVLTTNPRRLSIIA 334
Score = 35.6 bits (81), Expect = 0.018
Identities = 24/155 (15%), Positives = 47/155 (30%), Gaps = 44/155 (28%)
Query: 44 FQFSVYNQPSYEKLTIQVADILQTSHTKSFTLYVDEVLEAFDCGDLASDW----FAKYL- 98
S+ + Y +L +++ + H Y + + FD DL + F ++
Sbjct: 424 STISIPSI--YLELKVKLEN-EYALHRSIVDHY--NIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 99 -----LNQSDRS----------------IRL-GLSTNRRRSIGD------NYLRKYTTVY 130
+ +R IR + N SI + Y + Y
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY-KPYICDN 537
Query: 131 DNVNDEDIGVYADMTSYMVLNENSLRDLNKKMSDI 165
D + + D + EN + K +D+
Sbjct: 538 DPKYERLVNAILDFL--PKIEENLICS---KYTDL 567
Score = 35.2 bits (80), Expect = 0.023
Identities = 36/270 (13%), Positives = 75/270 (27%), Gaps = 78/270 (28%)
Query: 63 DILQTSHTKSFTLYVDEVLEAFDCGDLA-------SDWFAKYLLNQSDRSIR----LGLS 111
DIL ++ D ++ FDC D+ S +++ D
Sbjct: 20 DILS--------VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71
Query: 112 TNRRRSIGDNY----LRK-YTTVYDNVNDEDIGVYADMTSYMVLNENSLRDLNKKMSDIG 166
+++ + + LR Y + + E Y+ + D N+ +
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND-NQVFAKYN 130
Query: 167 V---EDV-----SMLQFR--GNIVVDGPPSYAEDTWDWVRFNSDVITRQVKPCTRCILTT 216
V + ++L+ R N+++DG + V C +
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLG----------SGKTWVALDV--CLSYKVQC 178
Query: 217 VHPDT------GRKQPDSQPLKMLQ--MYRAVPDLE---------RRKVENFAPMFGVYM 259
L+MLQ +Y+ P+ + ++ + +
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Query: 260 GVHRTGYVN---VGDDVY---------VGC 277
Y N V +V + C
Sbjct: 239 KSKP--YENCLLVLLNVQNAKAWNAFNLSC 266
>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 = 48.5 bits (115), Expect = 1e-06
Identities = 49/290 (16%), Positives = 96/290 (33%), Gaps = 85/290 (29%)
Query: 26 KKFNHLLLIQTEYMGGGAFQFSVYNQP-SYEKLTIQ----VADILQTSHTKSFTLYVDEV 80
++FN +L TE F+ ++P + +L + V+ +++ S F ++
Sbjct: 35 EQFNKILPEPTE-------GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLC 87
Query: 81 LEAFDCGDLASD---WFAKYLLNQSDRSIRLGLSTNRRRSIGDNYL-------RKYTT-- 128
L F+ L + A LL ++D ++ + + + NY+ R +
Sbjct: 88 LTEFENCYLEGNDIHALAAKLLQENDTTLV------KTKELIKNYITARIMAKRPFDKKS 141
Query: 129 ---VYDNVNDEDIGVYA------DMTSYMVLNENSLRDLNKKMSDIGVEDV-----SMLQ 174
++ V + + + A + Y E LRDL + + V D+ L
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDY--FEE--LRDLYQTYHVL-VGDLIKFSAETLS 196
Query: 175 FRGNIVVDGPPSYAE--DTWDWVRFNSDVITRQVKPCTRCILTTVHPDTG--RKQPDSQP 230
+D + + + +W+ P PD P S P
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLE----------NPSNT-------PDKDYLLSIPISCP 239
Query: 231 L-KMLQM--YRAVPDLERRKVENFAP--MFGVYMGVHRTGYVNVGDDVYV 275
L ++Q+ Y K+ F P + G TG +
Sbjct: 240 LIGVIQLAHYVVT-----AKLLGFTPGELRSYLKGA--TG---HSQGLVT 279
Score = 34.6 bits (79), Expect = 0.041
Identities = 41/227 (18%), Positives = 75/227 (33%), Gaps = 67/227 (29%)
Query: 68 SHTKSFTLYVDEVLEAFDCGDLASDW--FAKYLLNQSDRSIRL----GLSTNR-RRSIGD 120
S+ K T + ++ A W F ++I + G+ R + +
Sbjct: 265 SYLKGATGHSQGLVTAVAIA-ETDSWESF----FVSVRKAITVLFFIGV---RCYEAYPN 316
Query: 121 NYLRKYTTVYDNVNDEDIGVYADMTSYMVLNENSLRDLNKKMSDIGVED----------- 169
L + + D++ + + GV S M+ S+ +L ++ V
Sbjct: 317 TSLPP-SILEDSL-ENNEGV----PSPML----SISNLTQEQVQDYVNKTNSHLPAGKQV 366
Query: 170 -VSMLQFRGNIVVDGPPSYAEDTWDWVRFNSDVITRQVKPCTRCILTTVHPDTGRKQ--- 225
+S++ N+VV GPP N + R+ K + + + P + RK
Sbjct: 367 EISLVNGAKNLVVSGPPQ------SLYGLNLTL--RKAKAPSGLDQSRI-PFSERKLKFS 417
Query: 226 ----PDSQP----LKMLQMYRAVP----DLERRKVENFAPMFG--VY 258
P + P L + A DL + V A VY
Sbjct: 418 NRFLPVASPFHSHL----LVPASDLINKDLVKNNVSFNAKDIQIPVY 460
>1o65_A Hypothetical protein YIIM; structural genomics, unknown function;
2.33A {Escherichia coli} SCOP: b.58.1.2 PDB: 1o67_A
Length = 246
Score = 32.3 bits (73), Expect = 0.14
Identities = 14/106 (13%), Positives = 28/106 (26%), Gaps = 26/106 (24%)
Query: 174 QFRGNIVVDGPPSYAEDTWDWVRFNSDV--ITRQVKPCTRCILTTVHPDTGRKQPDSQPL 231
F N+ DG D R+ + +++ PC +
Sbjct: 95 AFGENLSTDGLTESNVYMGDIFRWGEALIQVSQPRSPCYK-------------------- 134
Query: 232 KMLQMYRAVPDLERRKVENFAPMFGVYMGVHRTGYVNVGDDVYVGC 277
L + + D+ + G V G V+ + +
Sbjct: 135 --LNYHFDISDIAQLMQNTGKV--GWLYSVIAPGKVSADAPLELVS 176
>1oru_A YUAD protein; structural genomics, cytosolic hypothetical protein,
PSI, protein structure initiative, midwest center for
structural genomics; HET: MSE; 1.80A {Bacillus subtilis}
SCOP: b.58.1.2
Length = 195
Score = 31.5 bits (71), Expect = 0.18
Identities = 24/123 (19%), Positives = 36/123 (29%), Gaps = 21/123 (17%)
Query: 157 DLNKKMSDIGVEDVSMLQFRGNIVVDGPPSYAE-DTWDWVRFNSDV---ITRQVKPCTRC 212
+ N+ +GV + N+ V G P + F S + PC
Sbjct: 76 ECNEIALKMGVPRILPEWLGANVAVSGMPDLTSLKEGSRIIFPSGAALLCEGENDPC--- 132
Query: 213 ILTTVHPDTGRKQPDSQPLKMLQMYRAVPDLERRKVENFAPMFGVYMGVHRTGYVNVGDD 272
QP P L V + + G+ V R G V GD+
Sbjct: 133 -----------IQPGEVIQSYYPDQ---PKLASAFVRHALGIRGIVCIVERPGAVYTGDE 178
Query: 273 VYV 275
+ V
Sbjct: 179 IEV 181
>3pmo_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltr; lipid A
biosynthesis pathway, transferase; 1.30A {Pseudomonas
aeruginosa}
Length = 372
Score = 29.5 bits (67), Expect = 1.1
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 251 FAPMFGVYMGVHRTGYVNVGDDVYVGC 277
FA GV+ + + G V +GDDV +G
Sbjct: 207 FANEKGVWQKIAQIGGVTIGDDVEIGA 233
>3eh0_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N- acyltransferase; LPXD,
LEFT-handed parallel beta helix, acyl carrier protein,
antibiotic resistance; 2.60A {Escherichia coli}
Length = 341
Score = 28.7 bits (65), Expect = 2.4
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 251 FAPMFGVYMGVHRTGYVNVGDDVYVGC 277
+A G ++ + + G V +GD V +G
Sbjct: 185 YANDRGNWVKIPQIGRVIIGDRVEIGA 211
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 27.6 bits (62), Expect = 5.1
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 251 FAPM-FGVYMGVHRTGYVNVGDDVYVGC 277
+ FG + + G V + DDV +G
Sbjct: 212 YVTSAFGQHKHLKHLGKVIIEDDVEIGA 239
>1b5f_B Protein (cardosin A); hydrolase, aspartic proteinase; HET: NAG FUC
BMA MAN; 1.72A {Cynara cardunculus} SCOP: b.50.1.2
Length = 87
Score = 25.7 bits (57), Expect = 5.5
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 118 IGDNYLRKYTTVYDNVND 135
+GD ++R Y TV+D N
Sbjct: 62 LGDVFMRPYHTVFDYGNL 79
>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 = 26.1 bits (57), Expect = 5.8
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 38 YMGGGAFQFSVYNQPSYEKLTIQVADILQTSHTKSFTL-YVDE 79
Y G S+E L +V D+ + + FT+ ++DE
Sbjct: 12 YYRGDIMITHFEPSISFEGLCNEVRDMCSFDNEQLFTMKWIDE 54
>1fsu_A N-acetylgalactosamine-4-sulfatase; glycosaminoglycan degradation,
hydrolase, glycopr lysosome; HET: ALS NAG; 2.50A {Homo
sapiens} SCOP: c.76.1.2
Length = 492
Score = 27.4 bits (61), Expect = 6.5
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 125 KYTTVYDNVNDEDIGVYADMTSYM 148
+Y YD + D++ YA M S M
Sbjct: 209 EYLKPYDFIQDKNRHHYAGMVSLM 232
>2qzx_A Candidapepsin-5; aspartic proteinase, aspartyl protease, CL PAIR of
basic residues, glycoprotein, protease, secreted; HET:
STA; 2.50A {Candida albicans}
Length = 342
Score = 27.0 bits (60), Expect = 6.7
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 118 IGDNYLRKYTTVYDNVNDEDIG 139
+GDN+LR VY+ + + I
Sbjct: 306 LGDNFLRSAYVVYNLDDKK-IS 326
>3bu2_A Putative tRNA-binding protein; structural genomics, PSI-2, protein
structure initiative; 2.70A {Staphylococcus
saprophyticus subsp}
Length = 199
Score = 26.5 bits (59), Expect = 7.1
Identities = 7/35 (20%), Positives = 12/35 (34%)
Query: 147 YMVLNENSLRDLNKKMSDIGVEDVSMLQFRGNIVV 181
++ L E ++ K + G F VV
Sbjct: 61 HIKLTETLVQAFQKAIEAAGFTYKLDADFTPKFVV 95
>1t1u_A Choline O-acetyltransferase; choline acetyltransferase; 1.55A
{Rattus norvegicus} SCOP: c.43.1.3 c.43.1.3 PDB: 1q6x_A
2fy2_A 2fy3_A 2fy4_A* 2fy5_A*
Length = 639
Score = 27.1 bits (59), Expect = 7.2
Identities = 18/66 (27%), Positives = 29/66 (43%)
Query: 173 LQFRGNIVVDGPPSYAEDTWDWVRFNSDVITRQVKPCTRCILTTVHPDTGRKQPDSQPLK 232
L + V + +DT D +RF + +I+ + T ++ D + Q QPL
Sbjct: 101 LPVNSSPAVIFARQHFQDTNDQLRFAACLISGVLSYKTLLDSHSLPTDWAKGQLSGQPLC 160
Query: 233 MLQMYR 238
M Q YR
Sbjct: 161 MKQYYR 166
>3fv3_A SAPP1P-secreted aspartic protease 1; secreted aspartic protease,
virulence factor, H; HET: STA; 1.85A {Candida
parapsilosis} PDB: 3tne_A*
Length = 339
Score = 26.9 bits (60), Expect = 8.6
Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 119 GDNYLRKYTTVYDNVNDEDIG 139
GDN+LR +Y+ + I
Sbjct: 305 GDNFLRHAYLLYNLDANT-IS 324
>1j71_A Candidapepsin, aspartic proteinase; candida tropicalis aspartic
protease, SAPT1, hydrolase; 1.80A {Candida tropicalis}
SCOP: b.50.1.2
Length = 334
Score = 26.9 bits (60), Expect = 8.9
Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 119 GDNYLRKYTTVYDNVNDEDIG 139
GDN+LR+ VYD + I
Sbjct: 300 GDNFLRRAYIVYDLDDKT-IS 319
>3pvk_A Candidapepsin-2; hydrolase; 1.27A {Candida albicans} PDB: 1eag_A
3q70_A* 1zap_A* 2qzw_A 2h6t_A* 2h6s_A*
Length = 342
Score = 26.5 bits (59), Expect = 9.2
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 118 IGDNYLRKYTTVYDNVNDEDIG 139
+GDN+LR VYD ++E I
Sbjct: 306 LGDNFLRSAYIVYDLDDNE-IS 326
>3lpj_A Beta-secretase 1; alzheimer'S, aspartyl protease, hydrolase; HET:
TLA Z75; 1.79A {Homo sapiens} PDB: 3lpi_A* 3lpk_A*
3ohf_A* 3ohh_A* 3r2f_A* 3skf_A* 3skg_A* 2hiz_A* 2p83_A*
2va7_A* 2va5_A* 2va6_A*
Length = 455
Score = 26.8 bits (59), Expect = 9.7
Identities = 3/18 (16%), Positives = 7/18 (38%)
Query: 118 IGDNYLRKYTTVYDNVND 135
+G + + V+D
Sbjct: 395 MGAVIMEGFYVVFDRARK 412
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
0.320 0.137 0.409
Gapped
Lambda K H
0.267 0.0638 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,290,735
Number of extensions: 248698
Number of successful extensions: 599
Number of sequences better than 10.0: 1
Number of HSP's gapped: 592
Number of HSP's successfully gapped: 38
Length of query: 280
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 188
Effective length of database: 4,133,061
Effective search space: 777015468
Effective search space used: 777015468
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: 57 (25.9 bits)