RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9119
(250 letters)
>3bqh_A PILB, peptide methionine sulfoxide reductase MSRA/MSRB; methionine
sulfoxide reductase A, oxidized form, elect transport;
1.95A {Neisseria meningitidis} PDB: 3bqe_A 3bqf_A*
3bqg_A
Length = 193
Score = 124 bits (313), Expect = 2e-35
Identities = 33/96 (34%), Positives = 52/96 (54%), Gaps = 7/96 (7%)
Query: 10 ICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNP 63
+ ++G H E +V +D +S +IL+ F++ DPT K TQYRS + + +P
Sbjct: 45 VSYRHTG-HAETVKVTYDADKLSLDDILQYFFRVVDPTSLNKQGNDTGTQYRSGVYYTDP 103
Query: 64 EDKEVAEKSLAEEKTKHRKPITTLVVPFKRFYDAEE 99
+K V +L E+ K++ P+ P K FYDAEE
Sbjct: 104 AEKAVIAAALKREQQKYQLPLVVENEPLKNFYDAEE 139
>3pim_A Peptide methionine sulfoxide reductase; methionine-S-sulfoxide
reductase, oxidoreductase; 1.90A {Saccharomyces
cerevisiae} PDB: 3pil_A 3pin_B
Length = 187
Score = 122 bits (309), Expect = 5e-35
Identities = 33/96 (34%), Positives = 48/96 (50%), Gaps = 7/96 (7%)
Query: 10 ICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNP 63
+C + EV QV ++P VI+ +E+ F++ HDPT TQYRS + +
Sbjct: 70 VCGGDTD-FAEVLQVSYNPKVITLRELTDFFFRIHDPTTSNSQGPDKGTQYRSGLFAHSD 128
Query: 64 EDKEVAEKSLAEEKTKHRKPITTLVVPFKRFYDAEE 99
D + K E + K I T++ P K FYDAEE
Sbjct: 129 ADLKELAKIKEEWQPKWGNKIATVIEPIKNFYDAEE 164
>2j89_A Methionine sulfoxide reductase A; MSRA, poplar, oxidoreductase;
1.7A {Populus trichocarpa}
Length = 261
Score = 122 bits (308), Expect = 4e-34
Identities = 34/96 (35%), Positives = 54/96 (56%), Gaps = 7/96 (7%)
Query: 10 ICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNP 63
+CT + H EV +V +DP S+ ++ + W HDPT + TQYRS I + P
Sbjct: 137 VCTGTTN-HNEVVRVQYDPKECSFDTLIDVLWARHDPTTLNRQGNDVGTQYRSGIYYYTP 195
Query: 64 EDKEVAEKSLAEEKTKHRKPITTLVVPFKRFYDAEE 99
E ++ A++SL ++ + I T ++P K+FY AEE
Sbjct: 196 EQEKAAKESLERQQKLLNRKIVTEILPAKKFYRAEE 231
>3e0m_A Peptide methionine sulfoxide reductase MSRA/MSRB 1; fusion, msrab,
linker, hinge, cell membrane, membrane, multifunctional
enzyme, oxidoreductase; 2.40A {Streptococcus pneumoniae}
Length = 313
Score = 120 bits (302), Expect = 9e-33
Identities = 28/155 (18%), Positives = 55/155 (35%), Gaps = 14/155 (9%)
Query: 13 VYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNPEDK 66
+ DH E QV +D +S +EIL +++ DP + QYR+ I + + D
Sbjct: 45 LKETDHAETVQVIYDEKEVSLREILLYYFRVIDPLSINQQGNDRGRQYRTGIYYQDEADL 104
Query: 67 EVAEKSLAEEKTKHRKPITTLVVPFKRFYDAEEWP----RRVSLRRRRNIGNPSPHLSYR 122
+ E++ + I V + + AE++ R+ +
Sbjct: 105 PAIYTVVQEQERMLGRKIAVEVEQLRHYILAEDYHQDYLRKNPSGYCHIDVTDADKPLID 164
Query: 123 SHDSMTRKTLRASAQVELQERRLLQNLPPSGTPER 157
+ + A + + R+ Q + T E
Sbjct: 165 AANYEKPSQEVLKASLSEESYRVTQE---AAT-EA 195
>1fvg_A Peptide methionine sulfoxide reductase; oxidoreductase; 1.60A {Bos
taurus} SCOP: d.58.28.1 PDB: 1fva_A 2l90_A*
Length = 199
Score = 113 bits (285), Expect = 3e-31
Identities = 35/100 (35%), Positives = 53/100 (53%), Gaps = 11/100 (11%)
Query: 10 ICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNP 63
+C+ +G H EV +V F P IS++E+L++FW++HDPT M+ +QYRS I +
Sbjct: 86 VCSGKTG-HAEVVRVVFQPEHISFEELLKVFWENHDPTQGMRQGNDHGSQYRSAIYPTSA 144
Query: 64 EDKEVAEKSLAEE----KTKHRKPITTLVVPFKRFYDAEE 99
E A KS + ITT + + FY AE+
Sbjct: 145 EHVGAALKSKEDYQKVLSEHGFGLITTDIREGQTFYYAED 184
>1nwa_A Peptide methionine sulfoxide reductase MSRA; oxidoreductase,
product complex, structural genomics, PSI, protein
structure initiative; 1.50A {Mycobacterium tuberculosis}
SCOP: d.58.28.1
Length = 203
Score = 113 bits (285), Expect = 3e-31
Identities = 29/100 (29%), Positives = 48/100 (48%), Gaps = 13/100 (13%)
Query: 8 RGICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHV 61
R T H E ++ FDP+V Y+ +L F++ HDPT + + T YRS I +
Sbjct: 66 RNHGT-----HAEAVEIIFDPTVTDYRTLLEFFFQIHDPTTKDRQGNDRGTSYRSAIFYF 120
Query: 62 NPEDKEVAEKSLAE--EKTKHRKPITTLVVPFKRFYDAEE 99
+ + K +A ++A+ + T V P F++AE
Sbjct: 121 DEQQKRIALDTIADVEASGLWPGKVVTEVSPAGDFWEAEP 160
>1ff3_A Peptide methionine sulfoxide reductase; alpha beta roll, PMSR,
MSRA, oxidoreductase; 1.90A {Escherichia coli} SCOP:
d.58.28.1 PDB: 2gt3_A 2iem_A
Length = 211
Score = 113 bits (284), Expect = 5e-31
Identities = 36/101 (35%), Positives = 54/101 (53%), Gaps = 12/101 (11%)
Query: 10 ICTVYSGDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMK------TQYRSMILHVNP 63
+C+ +G H E ++ +DPSVISY+++L++FW++HDP M+ TQYRS I + P
Sbjct: 85 VCSGDTG-HAEAVRIVYDPSVISYEQLLQVFWENHDPAQGMRQGNDHGTQYRSAIYPLTP 143
Query: 64 EDKEVAEKSLAE-----EKTKHRKPITTLVVPFKRFYDAEE 99
E A SL + ITT + FY AE+
Sbjct: 144 EQDAAARASLERFQAAMLAADDDRHITTEIANATPFYYAED 184
>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 = 43.5 bits (102), Expect = 5e-05
Identities = 42/188 (22%), Positives = 58/188 (30%), Gaps = 61/188 (32%)
Query: 48 VQMKTQYRSM--ILHVNPEDKEVAEKSLAEEKTKHRKPITTLVVP-----FKRFYDA--- 97
+Q+ Y +L P + K T H + + T V ++ F+ +
Sbjct: 244 IQL-AHYVVTAKLLGFTPGELRSYLKGA----TGHSQGLVTAVAIAETDSWESFFVSVRK 298
Query: 98 -------------EEWPRRVSLR-------RRRNIGNPSPHLSYR--------SHDSMTR 129
E +P SL N G PSP LS + + T
Sbjct: 299 AITVLFFIGVRCYEAYPN-TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 130 KTLRASAQVELQERRLLQNLPP----SGTPERLCRGLNNRLLFSLHSYHQKYRLRQ---- 181
L A QVE+ L N SG P+ L GLN L L Q
Sbjct: 358 SHLPAGKQVEIS----LVNGAKNLVVSGPPQSLY-GLNLT----LRKAKAPSGLDQSRIP 408
Query: 182 HSELQPKL 189
SE + K
Sbjct: 409 FSERKLKF 416
>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 = 41.0 bits (95), Expect = 3e-04
Identities = 44/338 (13%), Positives = 84/338 (24%), Gaps = 133/338 (39%)
Query: 16 GDHTEVTQVDFDPSVISYKEILRIFWKHHDPTVQMKTQYRSMIL---HV-NPE------- 64
DH+ ++ S + LR K Y + +L +V N +
Sbjct: 217 SDHSSNIKLRIH----SIQAELRRLLKSK--------PYENCLLVLLNVQNAKAWNAFNL 264
Query: 65 ---------DKEVAEKSLAEEKTKHRKPITTLVVPFKRFYDAE------EW--------P 101
K+V + L+ T H +L E ++ P
Sbjct: 265 SCKILLTTRFKQVTD-FLSAATTTHI----SLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 102 RRV-------------SLRRRRNIGNPSPHLSYRSHDSMTRKTLRASAQVELQER----- 143
R V S+R + H++ ++ +L E ++
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 144 ----------RLLQNL---PPSGTPERLCRGLNNRLL---------FSLHSYHQKYRLRQ 181
LL + + L+ L S+ S + L+
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYL--ELKV 437
Query: 182 HSELQPKLN------FKSEDCYKTSHLAA-RLNGYVVGFGG-----IKQFEE-------- 221
E + L+ + + + L L+ Y G I+ E
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Query: 222 -------------------EADQLGLSEDVKNYVRKYV 240
L + +K Y + Y+
Sbjct: 498 LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY-KPYI 534
Score = 36.8 bits (84), Expect = 0.005
Identities = 37/243 (15%), Positives = 74/243 (30%), Gaps = 62/243 (25%)
Query: 27 DPSV-----ISYKEIL----RIFWKHHDPTVQMKTQYRSMILHVNPEDKEVAE------K 71
PS+ I ++ L ++F K++ +Q + R +L + P + + K
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 72 S-LAEEKTKHRKPITTLVVPFKRFYDAEEWPRRVSLRRRRNIGNPSPHLSYRSHDSMTRK 130
+ +A + K + FK F W N+ N S +++
Sbjct: 164 TWVALDVCLSYKVQCKM--DFKIF-----W---------LNLKN------CNSPETVLEM 201
Query: 131 TLRASAQVELQERRLLQNLPPSGTPERLCRGLNNRL--LFSLHSYHQKYR-LR--QHSEL 185
+ Q++ S + + L L Y L Q+++
Sbjct: 202 LQKLLYQIDPN---WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 186 QPKLNFKSEDCYKT------SHLAARLNGYVVGFGGIKQFEEEADQLGLSED-VKNYVRK 238
N C K + L+ + + L+ D VK+ + K
Sbjct: 259 WNAFNLS---C-KILLTTRFKQVTDFLSAATT-----THISLDHHSMTLTPDEVKSLLLK 309
Query: 239 YVK 241
Y+
Sbjct: 310 YLD 312
>2vat_A Acetyl-COA--deacetylcephalosporin C acetyltransferase; A/B-
hydrolase fold, acyltransferase, acetyl coenzyme A,
antibiotic biosynthesis; HET: COA; 2.2A {Acremonium
chrysogenum} SCOP: c.69.1.40 PDB: 2vav_A* 2vax_A*
Length = 444
Score = 35.1 bits (81), Expect = 0.015
Identities = 15/84 (17%), Positives = 29/84 (34%), Gaps = 7/84 (8%)
Query: 94 FYDAEEWPRRVSLRRRRNIGNPSPHLSYRSHDSMTRKTLRASAQVELQERRLLQNLPPSG 153
YD ++ P R L R I +L+Y+S +M + A +
Sbjct: 262 EYDVDDQPVR-GLETARKIA----NLTYKSKPAMDERFHMAPGVQAGRNISSQDAKKEIN 316
Query: 154 TPERLCRGLNNRLLFSLHSY--HQ 175
+ + + ++ SY +Q
Sbjct: 317 GTDSGNSHRAGQPIEAVSSYLRYQ 340
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.4 bits (65), Expect = 0.90
Identities = 11/83 (13%), Positives = 20/83 (24%), Gaps = 30/83 (36%)
Query: 64 EDKEVAEKSLAEEKTKHRKPITTLVVPFKRFYDAEEWPRRVSLRRRRNIGNPSPHLSYRS 123
+ K + E A + + K+ D EEW +
Sbjct: 94 QRKRLQELDAASKVMEQE-----WREKAKK--DLEEW--------------------NQR 126
Query: 124 HDSMTRKTL---RASAQVELQER 143
K R + + Q+
Sbjct: 127 QSEQVEKNKINNRIADKAFYQQP 149
>2kd1_A DNA integration/recombination/invertion protein; protein
structure initiative, structural genomics, unknown
function, PSI-2; HET: DNA; NMR {Bacillus cereus atcc
14579}
Length = 118
Score = 27.7 bits (62), Expect = 1.6
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 27 DPSVISYKEILRIFWKHHDPTVQMKTQ--YRSMI-LHVNP 63
+PS +SY E L ++ +V ++T + + + P
Sbjct: 2 EPSKLSYGEYLESWFNTKRHSVGIQTAKVLKGYLNSRIIP 41
>2xn2_A Alpha-galactosidase; hydrolase, glycosidase; HET: SME GLA IMD;
1.58A {Lactobacillus acidophilus ncfm} PDB: 2xn1_A*
2xn0_A*
Length = 732
Score = 28.8 bits (64), Expect = 2.1
Identities = 13/92 (14%), Positives = 27/92 (29%), Gaps = 15/92 (16%)
Query: 21 VTQVDFDPSVISYKEILRI-----FWKHHDPTVQMKTQYRSMILHVNPEDKEVAEKSLAE 75
+ D + +S +E ++ +K Q T YR + A +
Sbjct: 604 DLGYELDLTKMSDEESDQVVKQVTEYKKIREVTQFGTLYR----LKASASNQCAWMMVDS 659
Query: 76 EKTKHRKPITTLVVPFKRFYDAEEWPRRVSLR 107
K + +V A+ + + L
Sbjct: 660 NKNE------AVVTVVNVMAHAQPYCTKTKLA 685
>2b61_A Homoserine O-acetyltransferase; acyl-enzyme, aspartate pathway,
coenzyme A, structure-functi studies, alpha-beta
hydrolase fold; 1.65A {Haemophilus influenzae} SCOP:
c.69.1.40
Length = 377
Score = 28.0 bits (63), Expect = 2.7
Identities = 8/38 (21%), Positives = 16/38 (42%), Gaps = 7/38 (18%)
Query: 94 FYDAEEWPRR-VSLRRRRNIGNPSPHLSYRSHDSMTRK 130
Y P + +S+ R +G L+YR+ + +
Sbjct: 216 DYYEGTPPDQGLSIARM--LG----MLTYRTDLQLAKA 247
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 28.1 bits (63), Expect = 2.9
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 24 VDFDPSVISYKEILRIFWKHHDPTVQMKTQYR 55
D P V S + IL + + TV + QY
Sbjct: 602 EDGRPQVKSIRRILLEWIEIRKKTVTRRLQYH 633
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 27.9 bits (63), Expect = 3.2
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 24 VDFDPSVISYKEILRIFWKHHDPTVQMKTQYR 55
+D P+V + EIL + TV+ + YR
Sbjct: 308 LDGRPAVKNLLEILSEWLVFRRDTVRRRLNYR 339
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 26.5 bits (59), Expect = 9.0
Identities = 9/22 (40%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 217 KQFEEEA-DQLGLSEDVKNYVR 237
++ E+ D LG +EDVK ++R
Sbjct: 244 IEYTEDIYDDLGWTEDVKRFLR 265
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 0.134 0.398
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,949,200
Number of extensions: 232368
Number of successful extensions: 681
Number of sequences better than 10.0: 1
Number of HSP's gapped: 668
Number of HSP's successfully gapped: 31
Length of query: 250
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 159
Effective length of database: 4,160,982
Effective search space: 661596138
Effective search space used: 661596138
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 (25.8 bits)