RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4909
(361 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 = 45.8 bits (108), Expect = 2e-05
Identities = 51/310 (16%), Positives = 83/310 (26%), Gaps = 122/310 (39%)
Query: 91 SATVPSSSAPSI-LPQ----------SQQSHNSLMSLNHGTSGATHLRVTNTRAVLNLRR 139
S + S P I + Q + L S G +G + VT AV
Sbjct: 233 SIPI---SCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT---AVA---- 282
Query: 140 RPPATTTTLTPPPHLWRS-RVIAQDVLDKA---GLELPPPASDSNSQQQQQQ-----EVY 190
A T + W S V + + G+ + +
Sbjct: 283 --IAETDS-------WESFFVSVRKAITVLFFIGVR---------CYEAYPNTSLPPSIL 324
Query: 191 DKSLAPSEAHIP-YMLGVVPLGPQPLHKAHHYQYQLVDQAYHHLPT-------------- 235
+ SL +E +P ML + L + + V++ HLP
Sbjct: 325 EDSLENNEG-VPSPMLSISNLTQEQVQD-------YVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 236 ------PADSERLRHYITRTPCTTPSYYPQVPLPHSDTLDFFQRLSTESLFFIFYYMEGT 289
P L + + PS Q +P S +R F
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKA--PSGLDQSRIPFS------ERKLK------FSN---- 418
Query: 290 KAQYLAAKALKKQSWRFHTKYMMWFQRHEEP--KLINEDYEQGTYIY---------FDNE 338
++L + FH+ + P LIN+D + + +D
Sbjct: 419 --RFLPVAS------PFHSHLL-------VPASDLINKDLVKNNVSFNAKDIQIPVYDTF 463
Query: 339 KWS-QRKKEG 347
S R G
Sbjct: 464 DGSDLRVLSG 473
Score = 33.1 bits (75), Expect = 0.15
Identities = 47/333 (14%), Positives = 89/333 (26%), Gaps = 115/333 (34%)
Query: 77 VKPTAVRPLSTTN----TSATVPSSSAP----------SILPQS---------QQSHNSL 113
+ + RPL+ ++ VP++S ILP+ + L
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL 60
Query: 114 MS--LNHGTSGATHLRVTNTRAVLN----------LRRR---------PPATTTTLTPPP 152
+ L + +S +V VLN L TTL
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 153 HLWRSRVIAQDVLDKAGLELPPPASDSNSQQQQ---------Q----------QEVYDKS 193
L ++ + A+ + + + A + Q +++Y
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 194 LAPSEAHIPYMLGVV-PLGPQPLHKAHHYQ--YQLV----------DQAYHHLPTPADS- 239
I + + L L + ++ D+ Y L + S
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY--LLSIPISC 238
Query: 240 -----ERLRHYIT--RTPCTTPSYYPQ---------------VPLPHSDTLDFFQRLSTE 277
+L HY+ + TP V + +D+ + F +
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK 298
Query: 278 S---LFFIFYYMEGTKAQ------YLAAKALKK 301
+ LFFI G + L L+
Sbjct: 299 AITVLFFI-----GVRCYEAYPNTSLPPSILED 326
Score = 33.1 bits (75), Expect = 0.15
Identities = 34/187 (18%), Positives = 51/187 (27%), Gaps = 63/187 (33%)
Query: 193 SLAP---SEAHIPYMLGVVPLGPQPLHKAHHYQYQLVDQAYHHLPTP-----ADSE---- 240
S P S + ++L V P QL +Q LP P AD E
Sbjct: 5 STRPLTLSHGSLEHVLLV----PTASF--FIAS-QLQEQFNKILPEPTEGFAADDEPTTP 57
Query: 241 -----RLRHYITR-TPCTTPSYYPQVPLPHSDTLDFFQR--LSTE---SLFFIFYYMEGT 289
+ Y++ + + QV L L F+ L +L T
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQV-LNLC--LTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 290 KAQ--------YLAAKALKKQSWRFHTKYMMWFQRHEEPKLINEDYE-----------QG 330
Y+ A+ + K+ F + L E QG
Sbjct: 115 TLVKTKELIKNYITARIMAKRP----------FDKKSNSALFRAVGEGNAQLVAIFGGQG 164
Query: 331 TYI-YFD 336
YF+
Sbjct: 165 NTDDYFE 171
>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 = 36.4 bits (83), Expect = 0.016
Identities = 34/285 (11%), Positives = 80/285 (28%), Gaps = 79/285 (27%)
Query: 93 TVPSSSAPSILPQSQQS--HNSLMSLNHGTSGATHLRVTNTRAVLNLRRRPPATTTTLTP 150
+ + ++P + + Q + + + ++++++ LRR L
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR-------LLKS 240
Query: 151 PPHLWRSRVIAQDVLDKAGLELPPPASDSNSQ---QQQQQEVYDKSLAPSEAHIPYMLGV 207
P+ ++ +V + A + + + + ++V D A + HI
Sbjct: 241 KPYE-NCLLVLLNVQNAKAWN----AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 208 VPLGPQPLHKAHHYQYQLVDQAYHHLPTPADS----------ERLRHYITRTPCTTPSYY 257
+ L P + + +D LP + E +R + +
Sbjct: 296 MTLTP---DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT-----WDNW 347
Query: 258 PQVPLPHSDTLDFFQRLSTESL-----------FFIFYYMEGTKAQYLAAKALKKQSWRF 306
V + D L S L +F + L
Sbjct: 348 KHV---NCDKLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAH---IPTILLS------ 393
Query: 307 HTKYMMWFQ-RHEEP----------KLINEDYEQGTY----IYFD 336
++WF + L+ + ++ T IY +
Sbjct: 394 ----LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Score = 32.5 bits (73), Expect = 0.24
Identities = 26/160 (16%), Positives = 50/160 (31%), Gaps = 28/160 (17%)
Query: 216 HKAHHYQYQLVDQAYHH---LPTPADSERLRHYITRTPCTTPSYYPQVPLPHSDTLDFFQ 272
H HH ++ + Y + L D+ ++ C P+ L +
Sbjct: 2 HHHHHMDFETGEHQYQYKDILSVFEDA-----FVDNFDCKDVQDMPKSILSKEEIDHIIM 56
Query: 273 RLSTES----LFFIFYYMEGTKAQYLAAKALKKQ-SW---RFHTKYMMWFQRHEEPKLIN 324
S LF+ + Q + L+ + T+ +P ++
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ-------RQPSMMT 109
Query: 325 EDY-EQGTYIYFDNEKWSQ----RKKEGFTFEYKYLEDRD 359
Y EQ +Y DN+ +++ R + LE R
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRP 149
Score = 31.0 bits (69), Expect = 0.84
Identities = 27/216 (12%), Positives = 67/216 (31%), Gaps = 41/216 (18%)
Query: 158 RVIAQDVLDKAGLELPPPASDS--------NSQQQQQQEVYDKSLAPSEAHIPYMLGVVP 209
+++++ +D + S + + Q++ Q+ ++ L + + +
Sbjct: 44 SILSKEEIDHI-IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ 102
Query: 210 LGPQPLHKAHHYQYQLVDQAYHHLPTPADSERLRHY-ITRTPCTTPSYYPQVPLPHSDTL 268
P + + Y Q D+ Y+ D++ Y ++R P+
Sbjct: 103 RQPSMMTRM--YIEQ-RDRLYN------DNQVFAKYNVSR------------LQPYLKLR 141
Query: 269 DFFQRLSTESLFFIFYYMEGTKAQYLAAKALKKQSWRFHTKY---MMW--FQRHEEPKLI 323
L I + G+ ++A S++ K + W + P+ +
Sbjct: 142 QALLELRPAKNVLI-DGVLGSGKTWVALDVC--LSYKVQCKMDFKIFWLNLKNCNSPETV 198
Query: 324 NEDYEQGTYIYFDNEKWSQRKKEGFTFEYKYLEDRD 359
E Q D W+ R + + +
Sbjct: 199 LEML-QKLLYQID-PNWTSRSDHSSNIKLRIHSIQA 232
>4ava_A Lysine acetyltransferase; allosteric regulation, domain coupling;
HET: ACO; 1.70A {Mycobacterium tuberculosis} PDB:
4avb_A* 4avc_A*
Length = 333
Score = 30.4 bits (68), Expect = 0.94
Identities = 11/91 (12%), Positives = 21/91 (23%), Gaps = 1/91 (1%)
Query: 205 LGVVPLGPQPLHKAHHYQYQLVDQAYHHLPTPADSERLRHYITRTPCTTPSYYPQVPLPH 264
L G H ++ + + T P +P
Sbjct: 108 LTGWTGGRGAFATMVHIPGV-GERLLRTARQRLAAFVSPIPVRLADGTQLMLRPVLPGDR 166
Query: 265 SDTLDFFQRLSTESLFFIFYYMEGTKAQYLA 295
T+ + S E+L+ F +
Sbjct: 167 ERTVHGHIQFSGETLYRRFMSARVPSPALMH 197
>3ka7_A Oxidoreductase; structural genomics, PSI-2, protein structure
initiative, northeast structural genomics consortium,
NESG; HET: FAD; 1.80A {Methanosarcina mazei}
Length = 425
Score = 30.0 bits (68), Expect = 1.4
Identities = 9/70 (12%), Positives = 19/70 (27%), Gaps = 9/70 (12%)
Query: 189 VYDKSLAPSEAHIPYMLGVVPLGPQPLHKAHHYQYQLVDQAYHHLPTPADSERLRHYITR 248
D LAP H+ + P+ + ++ P R+ +
Sbjct: 315 QADPELAPPGKHLTMCH--QYVAPENVKNLESEIEMGLEDLKEIFP------GKRYEVL- 365
Query: 249 TPCTTPSYYP 258
+ +P
Sbjct: 366 LIQSYHDEWP 375
>2nyn_A Phenylalanine/histidine ammonia-lyase; methylidene imidazolone
prosthetic group; HET: MDO; 1.90A {Anabaena variabilis}
PDB: 3czo_A* 2nyf_A*
Length = 565
Score = 29.3 bits (65), Expect = 2.1
Identities = 12/88 (13%), Positives = 25/88 (28%), Gaps = 7/88 (7%)
Query: 50 VEPNAPSSEKKNKSKMNSEEINASKGMVKPTAVRPLSTTNTSATVPSSSAPSILPQSQQS 109
P + + ++N ++ + + P+ Q Q+
Sbjct: 392 ASPEFSNGLPPSLLGNRERKVNMGLKGLQICGNSIMPLLTFYGNSIADRFPTHAEQFNQN 451
Query: 110 HNSLMSLNHGTSGATHLR--VTNTRAVL 135
NS G + AT R V + +
Sbjct: 452 INSQ-----GYTSATLARRSVDIFQNYV 474
>3n75_A LDC, lysine decarboxylase, inducible; pyridoxal-5'-phosphate
dependent decarboxylase, acid stress stringent response;
HET: LLP G4P P6G; 2.00A {Escherichia coli} PDB: 3q16_A*
Length = 715
Score = 29.2 bits (65), Expect = 2.8
Identities = 20/134 (14%), Positives = 37/134 (27%), Gaps = 29/134 (21%)
Query: 213 QPLHKAHHYQYQLVDQAYHHLPTPADSERLRHYITRTPCTTPSYYPQVPLPHSDTLDFFQ 272
Q HK + H+ + E T+P Y + S +
Sbjct: 363 QSTHKL---LAAFSQASMIHVKGDVNEETFNEAYMMHTTTSPHY----GIVAS--TETAA 413
Query: 273 RLSTESLFFIFYYMEGTKAQYLAAKALK------KQSWRFHTKYMMWFQRHEEPKLINED 326
M+G + L +++ K+ R T+ WF +P I+
Sbjct: 414 A-----------MMKGNAGKRLINGSIERAIKFRKEIKRLRTESDGWFFDVWQPDHID-- 460
Query: 327 YEQGTYIYFDNEKW 340
+ + W
Sbjct: 461 -TTECWPLRSDSTW 473
>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 = 28.0 bits (61), Expect = 3.0
Identities = 7/23 (30%), Positives = 9/23 (39%), Gaps = 3/23 (13%)
Query: 23 NSLASTSPHS-PTLGLNHSAVTE 44
SL + S P L + A E
Sbjct: 27 ASLKLYADDSAPALAIK--ATME 47
>2p4e_P Proprotein convertase subtilisin/kexin type 9; protease, LDL
receptor, LDL, endocytosis, hydrol; 1.98A {Homo sapiens}
Length = 692
Score = 28.4 bits (63), Expect = 3.9
Identities = 13/76 (17%), Positives = 23/76 (30%), Gaps = 4/76 (5%)
Query: 1 LDELELAGVV--PSSATTDSNGTPNSLASTSPHSPTLGLNHSAVTECSSSSVEPNAPSSE 58
L V+ TPN +A+ P + G T S+ S +
Sbjct: 415 LIHFSAKDVINEAWFPEDQRVLTPNLVAALPPSTHGAGWQLFCRTVWSAHS--GPTRMAT 472
Query: 59 KKNKSKMNSEEINASK 74
+ + E ++ S
Sbjct: 473 AIARCAPDEELLSCSS 488
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation, ATP-binding;
HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 28.4 bits (64), Expect = 4.2
Identities = 15/74 (20%), Positives = 26/74 (35%), Gaps = 15/74 (20%)
Query: 218 AHHYQYQLVDQAYHHLPTPADSERLRHYITRTPCTTPSYYPQVPLPH---------SDTL 268
AHH+ + + + ++ + T TP YY PH D L
Sbjct: 2 AHHHHHHMGTLEAQTQGPGSMKKQKVFFAT-----TPIYYVNAS-PHIGHVYSTLIVDVL 55
Query: 269 DFFQRLSTESLFFI 282
+ R+ E +F +
Sbjct: 56 GRYHRVKGEEVFVM 69
>2evv_A Hypothetical protein HP0218; alpha-beta structure, dimer,
structural genomics, PSI, prote structure initiative;
HET: MSE; 2.59A {Helicobacter pylori}
Length = 207
Score = 27.6 bits (61), Expect = 5.7
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 211 GPQPLHKAHHYQYQL--VDQAYHHLPTPADSERLRHYI 246
GP P + HHY Q+ +D L P L +
Sbjct: 148 GPMPPNGDHHYLIQVYALDIPKLALKAPFFLGDLHDKM 185
>2qtw_B Proprotein convertase subtilisin/kexin type 9; coronary heart
disease, hypercholest low density lipoprotein receptor,
autocatalytic cleavage; HET: NAG; 1.90A {Homo sapiens}
PDB: 3m0c_B 3bps_A 3gcw_A 3gcx_A 3p5b_A 3p5c_A 2pmw_B
3h42_B 2w2n_A 2w2m_A 2w2p_A 2w2q_A 2xtj_A 2w2o_A
Length = 546
Score = 27.6 bits (61), Expect = 7.3
Identities = 13/85 (15%), Positives = 24/85 (28%), Gaps = 6/85 (7%)
Query: 1 LDELELAGVV--PSSATTDSNGTPNSLASTSPHSPTLGLNHSAVTECSSSSVEPNAPSSE 58
L V+ TPN +A+ P + G C + + P+
Sbjct: 263 LIHFSAKDVINEAWFPEDQRVLTPNLVAALPPSTHGAGWQLF----CRTVWSAHSGPTRM 318
Query: 59 KKNKSKMNSEEINASKGMVKPTAVR 83
++ +E S + R
Sbjct: 319 ATAIARCAPDEELLSCSSFSRSGKR 343
>3nw4_A Gentisate 1,2-dioxygenase; beta-barrel, oxidoreductase; HET: GTQ;
2.00A {Pseudaminobacter salicylatoxidans} PDB: 3nvc_A*
3nst_A* 3njz_A* 2phd_A* 3nkt_A* 3nl1_A*
Length = 368
Score = 27.5 bits (60), Expect = 7.9
Identities = 13/90 (14%), Positives = 31/90 (34%), Gaps = 8/90 (8%)
Query: 173 PPPASDSNSQQQQQQEVYDKSLAPSEAHIPYMLGVVPLGPQPLHKAHHYQYQ----LVDQ 228
D+ + + ++S+ P + ++P+ P+ H +++ L +
Sbjct: 14 AMQPKDTPELRALYKSFEEESIIP---LWTQLGDLMPIHPKSKAVPHVWKWSTLLRLARK 70
Query: 229 AYHHLPTPADSERLRHYITRTPCTTPSYYP 258
+ +P ER R P + Y
Sbjct: 71 SGELVPVGRGGER-RALGLANPGLGGNAYI 99
>3bww_A Protein of unknown function DUF692/COG3220; structural genomics,
joint center for structural genomics, J protein
structure initiative, PSI-2; HET: MSE; 2.20A
{Haemophilus somnus}
Length = 307
Score = 27.3 bits (60), Expect = 8.6
Identities = 13/78 (16%), Positives = 23/78 (29%), Gaps = 12/78 (15%)
Query: 213 QPLHKAHHYQYQLVDQAYHHL-PTPADSERLRHYITRTPCT-----------TPSYYPQV 260
+ H + D + L P P E ++H R SYY
Sbjct: 88 NTPFFSDHLSFCECDGHLYDLLPMPFTDEAVKHTAARIREVQDFLEIQISVENTSYYLHS 147
Query: 261 PLPHSDTLDFFQRLSTES 278
+ ++F + E+
Sbjct: 148 ETSTMNEVEFLNAIVQEA 165
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
0.312 0.126 0.373
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,280,875
Number of extensions: 292721
Number of successful extensions: 509
Number of sequences better than 10.0: 1
Number of HSP's gapped: 506
Number of HSP's successfully gapped: 24
Length of query: 361
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 266
Effective length of database: 4,049,298
Effective search space: 1077113268
Effective search space used: 1077113268
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.1 bits)