RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16308
(371 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 = 61.2 bits (148), Expect = 3e-10
Identities = 67/396 (16%), Positives = 106/396 (26%), Gaps = 159/396 (40%)
Query: 43 NLCSVFLGTGNLLVWFGVLRYLGFFKTYNVVILTLKKAFPKVARFLL---------CAVL 93
L ++F G GN +F LR L ++TY+ L K + L +
Sbjct: 155 QLVAIFGGQGNTDDYFEELRDL--YQTYH----VLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 94 IYAGFTFCGWL----------------VLGP---------YHMKFRSLSTTSECLFALIN 128
G WL + P Y + + L T L + +
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 129 G-----DDMFATFSIMPKKSAMLW--WYLRIYLYSFISLYI-------YVILSLFISVIM 174
G + +I S W +++ + + +I Y SL S++
Sbjct: 269 GATGHSQGLVTAVAIAETDS---WESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Query: 175 DAY---ETIKQY--YINGFPKSDVIKFMGEIQEDETNHDFWSSIETASFSFREQIHKMHK 229
D+ E + I+ + V ++ ++TN + +Q+
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYV-----NKTN---------SHLPAGKQVE---- 367
Query: 230 SIALATRADREANGKRR------P----HLNT--RKGEEEEENRKFPDYNLSYRVILVLN 277
I+L NG + P LN RK K P L+
Sbjct: 368 -ISL-------VNGAKNLVVSGPPQSLYGLNLTLRK-------AKAPSG---------LD 403
Query: 278 QSTITRSER-------------PF---------------VKKKKRLLGGKS---P----K 302
QS I SER PF + K K P
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF 463
Query: 303 TG--LRTWEYRKRPPEVLCDVCF----YWAQALNSS 332
G LR E + D W
Sbjct: 464 DGSDLR--VLSGSISERIVDCIIRLPVKWETTTQFK 497
>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated
sodium-selective ION C membrane, metal transport; HET:
PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 3rw0_A*
Length = 285
Score = 52.0 bits (125), Expect = 1e-07
Identities = 23/163 (14%), Positives = 57/163 (34%), Gaps = 16/163 (9%)
Query: 33 ERKQFIGDQWN-------LCSVFLGTGNLLVW-----FGVLRYLGFFKTYNVVILTLKKA 80
R F D W+ S+ + + + R + ++ L
Sbjct: 85 HRISFFKDPWSLFDFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQMRKIVSALISV 144
Query: 81 FPKVARFLLCAVLIYAGFTFCGWLVLGP-YHMKFRSLSTTSECLFALINGDDMFATFSIM 139
P + + L + F + G + F +L + LF ++ + +
Sbjct: 145 IPGMLSVIALMTLFFYIFAIMATQLFGERFPEWFGTLGESFYTLFQVMTLES---WSMGI 201
Query: 140 PKKSAMLWWYLRIYLYSFISLYIYVILSLFISVIMDAYETIKQ 182
+ ++ Y ++ FI + +V+++L +++ +DA + Q
Sbjct: 202 VRPLMEVYPYAWVFFIPFIFVVTFVMINLVVAICVDAMAILNQ 244
>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 = 51.8 bits (123), Expect = 3e-07
Identities = 57/435 (13%), Positives = 113/435 (25%), Gaps = 168/435 (38%)
Query: 4 RLEFLNLWYVMIIAN----DVLLILGSSIKEQIERKQFIGDQWNL-CSVFLGTGNLLVWF 58
R+ + ++ + + LL+L ++ + + +NL C + L T
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLVL-----LNVQNAKAW-NAFNLSCKILLTTRFK---- 275
Query: 59 GVLRYLGFFKTYNVVILTLKKAFPK------VARFLLCAV----------------LIYA 96
V +L T ++ + + ++L C +I
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335
Query: 97 GF-----TFCGWLVLGPYHMKFRSLSTTSE-CLFALINGD--DMFATFSIMPKKS----- 143
T+ W H+ L+T E L L + MF S+ P +
Sbjct: 336 SIRDGLATWDNWK-----HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390
Query: 144 --AMLWWYLRIYLYSFI-------SL-------YIYVILSLFISV-------------IM 174
+++W+ + + SL I S+++ + I+
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450
Query: 175 DAYETIKQYYINGFPKSDVIKFMGEIQEDETNHDFWSSIETASFSFREQIHKMHKSIALA 234
D Y K + + D + + H H
Sbjct: 451 DHYNIPKTFDSDDLIPP---------YLD--QYFYS--------------HIGH------ 479
Query: 235 TRADREANGKRRPHLNTRKGEEEEENRKFPDYNLSYRVILVLNQSTITRSERPFVKKKKR 294
HL + E E F L +R F+++K R
Sbjct: 480 -------------HL--KNIEHPERMTLFRMVFLDFR----------------FLEQKIR 508
Query: 295 LLGGKSPKTGLRTWEYRKRPPEVLCDVCFYWAQALNSSNNRKQRCVLSNQKTWCTVIIKK 354
W L + FY ++ ++ +
Sbjct: 509 HDS--------TAWNASGSILNTLQQLKFYKPYICDNDPKYERL-------------VNA 547
Query: 355 NIHF-PALATHLELS 368
+ F P + +L S
Sbjct: 548 ILDFLPKIEENLICS 562
Score = 44.1 bits (103), Expect = 7e-05
Identities = 35/207 (16%), Positives = 68/207 (32%), Gaps = 76/207 (36%)
Query: 189 PKSDVIKFMGEIQEDETNHDF-WSSIETASFSFREQIHKMHKSIALATRADREANGKRRP 247
+ V KF+ E+ N+ F S I+T R+P
Sbjct: 75 QEEMVQKFVEEV--LRINYKFLMSPIKTEQ---------------------------RQP 105
Query: 248 HLNTRKGEEEEE-----NRKFPDYNLSYRVILVLNQSTITRSERPFVKKKKRLL------ 296
+ TR E+ + N+ F YN ++R +P++K ++ LL
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYN-------------VSR-LQPYLKLRQALLELRPAK 151
Query: 297 -----G----GKSPKTG--LRTWEYRKRPP-EVLCDVCFYWAQALNSSNNRKQRCVLSNQ 344
G GK+ +++ + + ++ +W LN N VL
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI------FW---LNLKNCNSPETVLEML 202
Query: 345 KTWCTVIIKKNIHFPALATHLELSLSS 371
+ I +++++L + S
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Score = 31.4 bits (70), Expect = 0.60
Identities = 45/281 (16%), Positives = 91/281 (32%), Gaps = 77/281 (27%)
Query: 6 EFLNLW--YVMIIANDVLLILGSSIKEQ---IERKQFIGDQWNLCSVFLGTGNL------ 54
+ L W + + + + I+ SS+ RK F + SVF + ++
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF-----DRLSVFPPSAHIPTILLS 393
Query: 55 LVWFGVLRYL------GFFK-----------TYNVVILTLKKAFPKVARFLLCAVLI--Y 95
L+WF V++ K T ++ + L+ + L ++ Y
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 96 AGF-TFCGWLVLGP-----------YHMKFRSLSTTSECLFALINGDDMFATFSIMPKK- 142
TF ++ P +H+K LF ++ F F + +K
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMT-LFRMV-----FLDFRFLEQKI 507
Query: 143 --SAMLWWYLRIYLYSFISLYIYVILSLFISVIMDAYETIKQYYINGFPKSDVIKFMGEI 200
+ W L + L Y +I YE +N ++ F+ +I
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFY---KPYICDNDPKYER----LVN-----AILDFLPKI 555
Query: 201 QEDETNHDFWSSIETASFSFREQIHKMHKSIALATRADREA 241
+E+ + + +I M + A+ A ++
Sbjct: 556 EENLICSKYTDLL---------RIALMAEDEAIFEEAHKQV 587
>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium
channel, sodium selective, gated ION channel; HET: BNG
PX4; 3.05A {Alpha proteobacterium HIMB114}
Length = 229
Score = 49.2 bits (118), Expect = 5e-07
Identities = 31/168 (18%), Positives = 57/168 (33%), Gaps = 27/168 (16%)
Query: 34 RKQFIGDQWN-------LCSV--FLGTGNLLVW-----FGVLRYLGFFKTYNVVILTLKK 79
+ F WN S+ + LV F VLR + +I + +
Sbjct: 69 KADFFKSGWNIFDTVIVAISLIPIPNNSSFLVLRLLRIFRVLRLISVIPELKQIIEAILE 128
Query: 80 AFPKVARFLLCAVLIYAGFTFCGWLVLGPYHMK-FRSLSTTSECLFALINGDD----MFA 134
+ +V L +I + G ++ G + L + LF ++ M
Sbjct: 129 SVRRVFFVSLLLFIILYIYATMGAILFGNDDPSRWGDLGISLITLFQVLTLSSWETVMLP 188
Query: 135 TFSIMPKKSAMLWWYLRIYLYSFISLYIYVILSLFISVIMDAYETIKQ 182
I + +Y +SFI + IL+L I++++D K
Sbjct: 189 MQEIYW--------WSWVYFFSFIIICSITILNLVIAILVDVVIQKKL 228
>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 = 31.1 bits (69), Expect = 0.33
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 9/29 (31%)
Query: 221 REQIHKMHKSI---------ALATRADRE 240
++ + K+ S+ ALA +A E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
>2uva_G Fatty acid synthase beta subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; HET:
FMN; 3.10A {Thermomyces lanuginosus} PDB: 2uvc_G*
Length = 2060
Score = 32.3 bits (73), Expect = 0.34
Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 6/65 (9%)
Query: 44 LCSVFLGTGNLLVWFGVLRYLGFFKTYNVVILTLKKA----FPKVARFLLCAVLIYAGFT 99
+ S+F G GN+ +F LR + + TY + L + +AR G
Sbjct: 151 IYSIFGGQGNIEEYFDELREI--YTTYPSFVEDLITSIAELLQSLAREWDAVKQYPKGLD 208
Query: 100 FCGWL 104
WL
Sbjct: 209 ILQWL 213
>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET: BHG
FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8
d.58.1.6 PDB: 2gmj_A*
Length = 584
Score = 30.2 bits (68), Expect = 1.4
Identities = 19/106 (17%), Positives = 33/106 (31%), Gaps = 8/106 (7%)
Query: 210 WSSIETASFSFREQIHKMHKSIALATRADREANGKRRPHLNTRKGEEEEENRKFPDYNLS 269
S + + H KS LA + L + + + +Y +
Sbjct: 353 GCSPGFMNVPKIKGTHTAMKSGTLAAESIFNQ-------LTSENLQSKTIGLHVTEYEDN 405
Query: 270 YRVILVLNQSTITRSERPFVKKKKRLLGGKSPKTGLRTWEYRKRPP 315
+ V + R+ RP + GG TG+ W +R P
Sbjct: 406 LKNSWVWKELYSVRNIRPSCHGILGVYGG-MIYTGIFYWIFRGMEP 450
>3bvx_A Alpha-mannosidase 2; family 38 glycoysl hydrolase, glycosidase,
golgi apparatus, membrane, signal-anchor, transmembrane;
HET: WZ5; 1.10A {Drosophila melanogaster} SCOP: a.8.3.1
b.30.5.6 c.6.2.1 PDB: 3bud_A 3buq_A* 3bvt_A* 3bui_A*
3bvv_A* 3bvw_A* 3bvu_A* 3cv5_A* 3czn_A* 3czs_A* 2ow6_A*
1r33_A* 1r34_A* 1tqs_A* 1tqt_A* 1tqu_A* 1tqv_A* 1tqw_A*
2alw_A* 2f18_A* ...
Length = 1045
Score = 29.5 bits (65), Expect = 2.2
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 2 EGRLEFLNLWYVMIIANDVLLILGSSIKEQIE-RKQFIGDQWNLCS 46
G+LEF+ +VM D ++ Q+ + ++ N+
Sbjct: 155 NGQLEFVTGGWVM---PDEANSHWRNVLLQLTEGQTWLKQFMNVTP 197
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.3 bits (60), Expect = 6.2
Identities = 17/68 (25%), Positives = 28/68 (41%), Gaps = 14/68 (20%)
Query: 233 LATR-ADREANGKRRPHLNTRK-----GEEEEENRKFPDYNLSYRVI----LVLNQSTI- 281
+ TR + + G+R P+LN + + ++ V LVL+ +
Sbjct: 1 MMTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVE--RFSEGDVVCALCGLVLSDKLVD 58
Query: 282 TRSE-RPF 288
TRSE R F
Sbjct: 59 TRSEWRTF 66
>1o7d_A Lysosomal alpha-mannosidase; hydrolase, glycosyl hydrolase family
38; HET: NAG BMA MAN NDG; 2.70A {Bos taurus} SCOP:
c.6.2.1
Length = 298
Score = 27.3 bits (60), Expect = 7.7
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 2 EGRLEFLNLWYVMIIANDVLLILGSSIKEQIE-RKQFIGDQWNLCS 46
+GRLEF N +VM ND +I +Q+ +F+ + +
Sbjct: 96 QGRLEFANGGWVM---NDEATTHYGAIIDQMTLGLRFLEETFGSDG 138
>1xj5_A Spermidine synthase 1; structural genomics, protein structure
initiative, CESG, AT1G23820, putrescine aminopropyl
transferase, SPDS1; 2.70A {Arabidopsis thaliana} SCOP:
c.66.1.17 PDB: 2q41_A
Length = 334
Score = 27.4 bits (61), Expect = 7.9
Identities = 6/30 (20%), Positives = 10/30 (33%), Gaps = 4/30 (13%)
Query: 76 TLKKAFPKVARFLLCAVLIYA----GFTFC 101
++ F + +V Y GF C
Sbjct: 251 NCREIFKGSVNYAWTSVPTYPSGVIGFMLC 280
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
0.326 0.139 0.435
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,657,096
Number of extensions: 329836
Number of successful extensions: 678
Number of sequences better than 10.0: 1
Number of HSP's gapped: 669
Number of HSP's successfully gapped: 18
Length of query: 371
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 276
Effective length of database: 4,049,298
Effective search space: 1117606248
Effective search space used: 1117606248
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: 58 (26.1 bits)