RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy484
(195 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 = 46.2 bits (109), Expect = 2e-06
Identities = 38/195 (19%), Positives = 71/195 (36%), Gaps = 47/195 (24%)
Query: 26 RP-SLH--DLESAISAPSSVSFVIVRHPFERLLSAYRDKIYNSLPN-TIHRAL----SSA 77
RP +L LE + P++ F+ +L +++ LP T A ++
Sbjct: 7 RPLTLSHGSLEHVLLVPTASFFI-----ASQL----QEQFNKILPEPTEGFAADDEPTTP 57
Query: 78 I--LRKYRPL---AATKSTSRRATFEEFVLYLLDTFRSNE-TGLDMHWAPVVQFCTP--- 128
+ K+ L ++ S+ F++ + L F + G D+H A +
Sbjct: 58 AELVGKF--LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH-ALAAKLLQENDT 114
Query: 129 CLINFNVILK--FETLQEDQRYLIELTGLSHLIKPEWINEGK-------GGSTNQ-MIGK 178
L+ ++K +R + + S L + + EG GG Q
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSN-SALFRA--VGEGNAQLVAIFGG---QGNTDD 168
Query: 179 FYSELSADQLYQLYN 193
++ EL LYQ Y+
Sbjct: 169 YFEELR--DLYQTYH 181
Score = 42.0 bits (98), Expect = 7e-05
Identities = 27/154 (17%), Positives = 44/154 (28%), Gaps = 48/154 (31%)
Query: 17 LSLARRKYPRPSLHDLESAISAPSSVSFVI------VRHPFERLLSAYRDKIYNSLPNTI 70
+A+R + + S L A+ ++ I FE L RD +Y +
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEEL----RD-LYQT----- 179
Query: 71 HRALSSAILRKYRPLAATKSTSRRATFEEFVLYLLDTFRSNETGLD-MHW------APVV 123
Y L T E + LD + GL+ + W P
Sbjct: 180 -----------YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 124 QFCTPCLINFNVILKFETLQEDQRYLIELTGLSH 157
+ I+ LI + L+H
Sbjct: 229 DYLLSIPISCP--------------LIGVIQLAH 248
Score = 33.9 bits (77), Expect = 0.033
Identities = 44/235 (18%), Positives = 69/235 (29%), Gaps = 91/235 (38%)
Query: 8 LRRQSQAPVLSLARRKYPRPSLHD--LESAISAPS---SVS-------FVIVRHPFERLL 55
+R P SL PS+ + LE+ PS S+S V L
Sbjct: 308 VRCYEAYPNTSLP------PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK-TNSHL 360
Query: 56 SAYRDKIYNSLPNTIHR------------ALSSAILRKYRPLAATKSTSRRATFEE---- 99
A + ++ SL N + L+ LRK + A + R F E
Sbjct: 361 PAGK-QVEISLVNG-AKNLVVSGPPQSLYGLNLT-LRKAK--APSGLDQSRIPFSERKLK 415
Query: 100 FVL------------YL---LDTFRSNETGLDMHWA------PVVQFCT----------- 127
F L D + ++ + PV + T
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV--YDTFDGSDLRVLSG 473
Query: 128 -------PCLINFNVILKFE-TLQEDQRYLIEL-----TGLSHLIKPEWINEGKG 169
C+I V K+E T Q ++++ +GL L +G G
Sbjct: 474 SISERIVDCIIRLPV--KWETTTQFKATHILDFGPGGASGLGVLTHR--NKDGTG 524
>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 = 0.030
Identities = 29/167 (17%), Positives = 50/167 (29%), Gaps = 44/167 (26%)
Query: 52 ERLLSAYRDKIYNSLPNTIHRALSSAILRKYRPLAATKSTSRRATFEEF--VLYLLDTFR 109
R+ RD++YN + KY + SR + + L L
Sbjct: 109 TRMYIEQRDRLYNDNQ----------VFAKY-------NVSRLQPYLKLRQALLELR--- 148
Query: 110 SNETGLDMH--------W--APVVQ-FCTPCLINFNVI-LKFETLQEDQRYLIELTGLSH 157
+ + W V + C ++F + L + + L L L +
Sbjct: 149 -PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 158 LIKPEWINEGKGGSTNQM----IGKFYSELSADQLYQ-----LYNVY 195
I P W + S ++ I L + Y+ L NV
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ 254
>3qm3_A Fructose-bisphosphate aldolase; structural genomics, center for
structural genomics of infec diseases, csgid, TIM
beta/alpha-barrel, lyase; 1.85A {Campylobacter jejuni}
Length = 357
Score = 29.7 bits (67), Expect = 0.52
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 134 NVILKFETLQEDQRYLIELTGLSHLIKPEWINEGKGGSTNQMIGK 178
NV L+ E L+ Q+++ + L+ ++ G GS + I
Sbjct: 231 NVSLQPEILKNSQKFVKDKFALNSDKPINFVFHGGSGSELKDIKN 275
>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 = 28.8 bits (63), Expect = 0.73
Identities = 7/31 (22%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 68 NTIHRALSSAILRKYRPLAATKSTSRRATFE 98
+ + L ++ L+ Y +A + + +AT E
Sbjct: 20 QALKK-LQAS-LKLYADDSA-PALAIKATME 47
Score = 25.7 bits (55), Expect = 8.8
Identities = 4/17 (23%), Positives = 7/17 (41%), Gaps = 6/17 (35%)
Query: 3 YSPQFLRRQSQAPVLSL 19
Y+ AP L++
Sbjct: 32 YADD------SAPALAI 42
>1x6d_A Interleukin-16; PDZ domain, lymphocyte chemoattractant factor
(LCF), structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: b.36.1.2
Length = 119
Score = 27.4 bits (61), Expect = 1.8
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 6 QFLRRQSQAPVLSLARRKYPRPSLHDLESAISAPSS 41
LR+ + + RK ++ DL S S PSS
Sbjct: 85 AILRQAREPRQAVIVTRKLTPEAMPDLNS--SGPSS 118
>1nox_A NADH oxidase; flavoenzyme, flavoprotein FMN, oxidoreductase,
thermophIle; HET: FMN; 1.59A {Thermus thermophilus}
SCOP: d.90.1.1
Length = 205
Score = 27.6 bits (62), Expect = 2.0
Identities = 18/102 (17%), Positives = 29/102 (28%), Gaps = 19/102 (18%)
Query: 32 LESAISAPSSV-----SFVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAIL----RKY 82
LE+A+ APS+ V+VR P A + + + H + +L
Sbjct: 37 LEAALRAPSAWNLQPWRIVVVRDP------ATKRALREAAFGQAHVEEAPVVLVLYADLE 90
Query: 83 RPLAATKSTSRRATFEEFVLYLLDTFRSNETGLDM----HWA 120
LA E + + WA
Sbjct: 91 DALAHLDEVIHPGVQGERREAQKQAIQRAFAAMGQEARKAWA 132
>3eof_A Putative oxidoreductase; YP_213212.1, structural genomics, J center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: FMN; 1.99A {Bacteroides fragilis nctc 9343}
Length = 248
Score = 27.3 bits (61), Expect = 3.1
Identities = 12/88 (13%), Positives = 26/88 (29%), Gaps = 18/88 (20%)
Query: 32 LESAISAPSS-----VSFVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAIL------- 79
LE++ A + S V+ R ++ + + N + +L
Sbjct: 29 LETSFRASTMGGMQLYSVVVTRDA------EKKEILSPAHFNQPMVKEAPVVLTFCADFR 82
Query: 80 RKYRPLAATKSTSRRATFEEFVLYLLDT 107
R + + F+ +DT
Sbjct: 83 RFCKYCQERNAVPGYGNLMSFLNAAMDT 110
>3n2s_A NADPH-dependent nitro/flavin reductase; alpga-beta-alpha
sandwich, oxidoreductase; HET: FMN; 1.95A {Bacillus
subtilis}
Length = 249
Score = 27.0 bits (60), Expect = 3.9
Identities = 8/45 (17%), Positives = 17/45 (37%), Gaps = 11/45 (24%)
Query: 32 LESAISAPSS-----VSFVIVRHPFERLLSAYRDKIYNSLPNTIH 71
++SA +A +S S + V P + ++ N +
Sbjct: 31 VKSAQAASTSSYVQAYSIIGVSDP------EKKRELSVLAGNQPY 69
>4acr_A Glypican-1; proteoglycan, glycosaminoglycans, heparan sulfate,
helical B glycoprotein, membrane protein; HET: NAG;
2.55A {Homo sapiens} PDB: 4ad7_A*
Length = 478
Score = 27.4 bits (60), Expect = 3.9
Identities = 20/99 (20%), Positives = 34/99 (34%), Gaps = 5/99 (5%)
Query: 22 RKYPRPSLHDLESAISAPSSVSFVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAILRK 81
S +LE+A+ S +++ L ++ D + L N R L +
Sbjct: 74 ENLANRSHAELETALRDSSR----VLQAMLATQLRSF-DDHFQHLLNDSERTLQATFPGA 128
Query: 82 YRPLAATKSTSRRATFEEFVLYLLDTFRSNETGLDMHWA 120
+ L + + R + E LY E L WA
Sbjct: 129 FGELYTQNARAFRDLYSELRLYYRGANLHLEETLAEFWA 167
>2acv_A Triterpene UDP-glucosyl transferase UGT71G1; glycosyltransferase;
HET: UDP; 2.00A {Medicago truncatula} SCOP: c.87.1.10
PDB: 2acw_A*
Length = 463
Score = 26.8 bits (60), Expect = 4.6
Identities = 16/145 (11%), Positives = 44/145 (30%), Gaps = 26/145 (17%)
Query: 41 SVSFVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAILRKYRPLAATKSTSRRATFEEF 100
++ ++ P +Y + S P I + + L + E
Sbjct: 41 YITVFCIKFPGMPFADSYIKSVLASQPQ-IQLIDLPEVEPPPQELLKSPEFYILTFLESL 99
Query: 101 VLYLLDTFRS-NETGLD-------MHWA---------PVVQFCTPCLINFNVILKFETLQ 143
+ ++ T ++ + P F T + +++L + Q
Sbjct: 100 IPHVKATIKTILSNKVVGLVLDFFCVSMIDVGNEFGIPSYLFLTSNVGFLSLMLSLKNRQ 159
Query: 144 EDQRY--------LIELTGLSHLIK 160
++ + L+ + G+S+ +
Sbjct: 160 IEEVFDDSDRDHQLLNIPGISNQVP 184
>1bkj_A NADPH-flavin oxidoreductase; luminescence, flavoprotein; HET:
FMN; 1.80A {Vibrio harveyi} SCOP: d.90.1.1 PDB: 2bkj_A*
Length = 240
Score = 26.5 bits (59), Expect = 5.0
Identities = 9/42 (21%), Positives = 17/42 (40%), Gaps = 11/42 (26%)
Query: 32 LESAISAPSS-----VSFVIVRHPFERLLSAYRDKIYNSLPN 68
+++ ++A SS VS V V R+++ N
Sbjct: 31 IQAGLAASSSSMLQVVSIVRVTDS------EKRNELAQFAGN 66
>3q5w_A Protein CUT8; proteasome, tether, chromosome, cell cycle, dimer,
NOVE; 2.75A {Schizosaccharomyces pombe} PDB: 3q5x_A
Length = 245
Score = 26.6 bits (58), Expect = 5.8
Identities = 9/87 (10%), Positives = 16/87 (18%), Gaps = 15/87 (17%)
Query: 49 HPFERLLSAYRDKIYNSLPNTIHRALSSAILRKYRPLAATKSTSRRATFEEFVLYLLDTF 108
L + +S P + A R A +
Sbjct: 95 DTCVETLRKLLINLNDSFPYGGDKRGDYAFNRIREKYMAVLHALND--------MVPCYL 146
Query: 109 RSNETGLDMHWAPVVQF---CTPCLIN 132
T + + F T +
Sbjct: 147 PPYST----CFEKNITFLDAATNVVHE 169
>1zch_A Hypothetical oxidoreductase YCND; nitroreductase, NADH-oxidase;
HET: FMN; 1.85A {Bacillus subtilis} SCOP: d.90.1.1
Length = 255
Score = 26.2 bits (58), Expect = 6.2
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 11/42 (26%)
Query: 32 LESAISAPSS-----VSFVIVRHPFERLLSAYRDKIYNSLPN 68
+E+ SAPSS V+ + V+ + KI
Sbjct: 31 IEAVQSAPSSINGQQVTVITVQDK------ERKKKISELAGG 66
>1f5v_A Oxygen-insensitive NADPH nitroreductase; flavoprotein,
oxidoreduction, nitrocompound, oxidoreductase; HET:
FMN; 1.70A {Escherichia coli} SCOP: d.90.1.1
Length = 240
Score = 26.1 bits (58), Expect = 7.4
Identities = 5/24 (20%), Positives = 9/24 (37%), Gaps = 5/24 (20%)
Query: 32 LESAISAPSS-----VSFVIVRHP 50
+ SA + SS S + +
Sbjct: 31 INSARATSSSSFLQCSSIIRITDK 54
>3bd9_A Heparan sulfate glucosamine 3-O-sulfotransferase 5; heparan sulfate
biosynthesis, substrate specificity, glycoprotein, golgi
apparatus, membrane; HET: A3P; 2.30A {Homo sapiens}
Length = 280
Score = 26.3 bits (57), Expect = 7.6
Identities = 28/158 (17%), Positives = 50/158 (31%), Gaps = 14/158 (8%)
Query: 44 FVIVRHPFERLLSAYRDKIYNSLPN--TIHRALSSAILRKYRPLAATKSTSRRATFEEFV 101
+IVR P R +S Y + T ++ AI + R + + + +
Sbjct: 113 LIIVREPTTRAISDYTQVLEGKERKNKTYYKFEKLAIDPNTCEVNTKYKAVRTSIYTKHL 172
Query: 102 LYLLDTFRSNETGLDMHWAPVVQFCTPCLINFNVILKF----ETLQEDQRYLIELTGLSH 157
L F H + T L ++ KF + + Y G
Sbjct: 173 ERWLKYFPIE----QFHVVDGDRLITEPLPELQLVEKFLNLPPRISQYNLYFNATRGFYC 228
Query: 158 LIKPEWINEGKGGSTNQMIGKFYSELSADQLYQLYNVY 195
L E N+ GS G+ + E+ + +L +
Sbjct: 229 LRFNEIFNKCLAGS----KGRIHPEVDPSVITKLRKFF 262
>3uan_A Heparan sulfate glucosamine 3-O-sulfotransferase; alpha/beta motif,
CO-FACT PAPS/PAP, heparan sulfate oligosaccharides,
golgi-localized transferase; HET: A3P NGY BDP SGN IDS;
1.84A {Mus musculus} PDB: 1vkj_A* 1zrh_A*
Length = 269
Score = 26.3 bits (57), Expect = 7.6
Identities = 27/156 (17%), Positives = 51/156 (32%), Gaps = 13/156 (8%)
Query: 44 FVIVRHPFERLLSAYRDKIYNSLPNTIHRALSSAILRKYRPLAATKSTSRRATFEEFVLY 103
+I+R P ER+LS Y +YN L +L + L R+ + +L
Sbjct: 105 LLILRDPSERVLSDYTQVLYNHLQKHKPYPPIEDLLMRDGRLNLDYKALNRSLYHAHMLN 164
Query: 104 LLDTFRSNETGLDMHWAPVVQFCTPCLINFNVILKF----ETLQEDQRYLIELTGLSHLI 159
L F +H + + +F + Y + G L
Sbjct: 165 WLRFFPLG----HIHIVDGDRLIRDPFPEIQKVERFLKLSPQINASNFYFNKTKGFYCLR 220
Query: 160 KPEWINEGKGGSTNQMIGKFYSELSADQLYQLYNVY 195
GK ++ G+ + ++ L +L+ +
Sbjct: 221 DS-----GKDRCLHESKGRAHPQVDPKLLDKLHEYF 251
>3m5k_A Putative NADH dehydrogenase/NAD(P)H nitroreductas; structural
genomics, joint center for structural genomics; HET:
MSE FMN; 1.86A {Parabacteroides distasonis}
Length = 172
Score = 25.6 bits (57), Expect = 8.2
Identities = 10/42 (23%), Positives = 16/42 (38%), Gaps = 11/42 (26%)
Query: 32 LESAISAPSS-----VSFVIVRHPFERLLSAYRDKIYNSLPN 68
+ + ++APSS F+IV D + LP
Sbjct: 35 IRAGMAAPSSRDRRPWEFIIVTDR------KALDTMAEGLPF 70
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PS
protein structure initiative, midwest center for
structural genomics; 2.09A {Pseudomonas aeruginosa}
SCOP: c.55.3.5
Length = 224
Score = 25.9 bits (57), Expect = 8.5
Identities = 4/16 (25%), Positives = 6/16 (37%)
Query: 17 LSLARRKYPRPSLHDL 32
+LA Y + L
Sbjct: 164 ATLAGLAYGQTVLAKA 179
>3e39_A Putative nitroreductase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE FMN PGE; 1.70A {Desulfovibrio
desulfuricans subsp}
Length = 178
Score = 25.7 bits (57), Expect = 9.8
Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 7/34 (20%)
Query: 32 LESAISAPSS-----VSFVIVRHP--FERLLSAY 58
LE+ I APS F+++R +L+A+
Sbjct: 35 LEAGIWAPSGLNNQPCRFLVIRADDPRCDILAAH 68
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
0.322 0.135 0.397
Gapped
Lambda K H
0.267 0.0504 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,876,390
Number of extensions: 157162
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 249
Number of HSP's successfully gapped: 26
Length of query: 195
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 106
Effective length of database: 4,216,824
Effective search space: 446983344
Effective search space used: 446983344
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 (21.9 bits)
S2: 55 (25.5 bits)