RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12986
(230 letters)
>3kxw_A Saframycin MX1 synthetase B; fatty acid AMP ligase, SGX, acyl
adenylate, structural genom 2, protein structure
initiative; HET: 1ZZ; 1.85A {Legionella pneumophila
subsp} PDB: 3lnv_A*
Length = 590
Score = 169 bits (431), Expect = 1e-49
Identities = 37/206 (17%), Positives = 71/206 (34%), Gaps = 5/206 (2%)
Query: 7 SEASNVVDIKSWPTILDTDDMPKKKLAALYRAPTAEMLAYLDFSVSTTGMLAGIKMSHAA 66
E + P I + + + + +A+L ++ +T G+ +SH
Sbjct: 132 DELNTNPKFLKIPAIALESIELNRSSSWQPTSIKSNDIAFLQYTSGSTMHPKGVMVSHHN 191
Query: 67 VTSLCRSMKLACELYPSRHIALCLDPYCGLGFALWVLSSVYSGHHSILIPPSEVEVNPAL 126
+ + + + I L P+ +G +L+ +Y G +I++ P NP
Sbjct: 192 LLDNLNKIFTSFHMNDETIIFSWLPPHHDMGLIGCILTPIYGGIQAIMMSPFSFLQNPLS 251
Query: 127 WLSAVSQYRVRDTFCSYGVMELCTKGLSGSIPQLKARNIALGCVRTCVVVAEERPRIHLT 186
WL +++Y+ + + C K I + K + L T A E R
Sbjct: 252 WLKHITKYKATISGSPNFAYDYCVKR----IREEKKEGLDLSSWVTAFNGA-EPVREETM 306
Query: 187 SAFSKLFSALGLSPRAVSTSFGCRVN 212
F + F G A +G
Sbjct: 307 EHFYQAFKEFGFRKEAFYPCYGLAEA 332
>3gqw_A Fatty acid AMP ligase; FAAL, E. coli, ATP-dependent binding enzyme
family,, structural genomics, PSI-2, protein structure
initiative; HET: ZZ9; 3.00A {Escherichia coli O6} PDB:
3pbk_A*
Length = 576
Score = 76.9 bits (190), Expect = 2e-16
Identities = 37/214 (17%), Positives = 76/214 (35%), Gaps = 22/214 (10%)
Query: 3 LGLLSEASNVVDIKSWPTILDTDDMPKKKLAALYRAPTAEMLAYLDFSVSTTGMLAGIKM 62
L L++ A++ + +P+ + P +AYL ++ +T G+ +
Sbjct: 139 LPLVNAATHDNPELHVLSHAWFKALPEA--DVALQRPVPNDIAYLQYTSGSTRFPRGVII 196
Query: 63 SHAAVTSLCRSMKLACELYPSRHIALC-LDPYCGLGFALWVLSSVYSGHHSILIPPSEVE 121
+H V + R++ + L Y +G ++L+ V + + +
Sbjct: 197 THREVMANLRAISHDGIKLRPGDRCVSWLPFYHDMGLVGFLLTPVATQLSVDYLRTQDFA 256
Query: 122 VNPALWLSAVSQYRVRDTFCS-----YGVMELCTKGLSGSIPQLKARNIALGCVRTCVVV 176
+ P WL +S+ R T Y ELC + + + + L C R +
Sbjct: 257 MRPLQWLKLISKNRG--TVSVAPPFGY---ELCQR----RVNEKDLAELDLSCWRVAGIG 307
Query: 177 AEERPRIHLTS--AFSKLFSALGLSPRAVSTSFG 208
AE I F++ F + + +G
Sbjct: 308 AE---PISAEQLHQFAECFRQVNFDNKTFMPCYG 338
>3t5a_A Long-chain-fatty-acid--AMP ligase FADD28; acetyl-COA synthetase
like fold, AMP-binding; 2.05A {Mycobacterium
tuberculosis} PDB: 3e53_A
Length = 480
Score = 71.3 bits (175), Expect = 1e-14
Identities = 34/201 (16%), Positives = 70/201 (34%), Gaps = 20/201 (9%)
Query: 19 PTILDTDDMPKKKLAAL-YRAPTAEMLAYLDFSVSTTGMLAGIKMSHAAVTSLCRSMKLA 77
P+I++ D + ++ AYL ++ +T AG+ MSH V +
Sbjct: 159 PSIIEVDLLDLDAPNGYTFKEDEYPSTAYLQYTSGSTRTPAGVVMSHQNVRVNFEQLMSG 218
Query: 78 CEL------YPSRHIALCLDPYCGLGFALWVLSSVYSGHHSILIPPSEVEVNPALWLSAV 131
P+ + L Y +G + + + + G+ ++L P PA W+ +
Sbjct: 219 YFADTDGIPPPNSALVSWLPFYHDMGLVIGICAPILGGYPAVLTSPVSFLQRPARWMHLM 278
Query: 132 SQYRVRDTFC---SYGVMELCTKGLSGSIPQLKARNIALGCVRTCVVVAEERP-RIHLTS 187
+ + ++ EL + LG + T + +E +
Sbjct: 279 ASDFHAFSAAPNFAF---ELAAR----RTTDDDMAGRDLGNILTILSGSE--RVQAATIK 329
Query: 188 AFSKLFSALGLSPRAVSTSFG 208
F+ F+ L R + S+
Sbjct: 330 RFADRFARFNLQERVIRPSYW 350
>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 = 3e-05
Identities = 40/239 (16%), Positives = 75/239 (31%), Gaps = 69/239 (28%)
Query: 10 SNVVDIKSWPTILDTDDMPKKK-LA--------------ALYRAPTAEMLAY-----LDF 49
+ ++I W + + + P K L A Y TA++L + +
Sbjct: 210 TQGLNILEW--LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV-TAKLLGFTPGELRSY 266
Query: 50 SVSTTGMLAGIKMSHAAVTSLCRSMKLACELYPSRHIALCLDPYCGLGFALWVLSSVYSG 109
TG G+ A + S + + S A+ + + G+
Sbjct: 267 LKGATGHSQGLVT--AVAIAETDSWE---SFFVSVRKAITVLFFIGV-----------RC 310
Query: 110 HHS---ILIPPSEV-------EVNPALWLSAVSQYRVRDTFCSYGVMELCTKGLSGSIPQ 159
+ + +PPS + E P+ LS + + + ++ + +P
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLS------ISN--LTQEQVQDYVNKTNSHLPA 362
Query: 160 LKARNIALGCVRTCVVVAEERPR--IHLTSAFSKLFSALGL-------SPRA--VSTSF 207
K I+L +VV+ P+ L K + GL S R S F
Sbjct: 363 GKQVEISLVNGAKNLVVSGP-PQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
Score = 37.0 bits (85), Expect = 0.004
Identities = 24/125 (19%), Positives = 39/125 (31%), Gaps = 45/125 (36%)
Query: 111 HSILIPPSEVEVNPALWLSAVSQYRVRDTFCSYGVMELCTKGLSGSIPQLKARNIALGCV 170
H +L+P + + A SQ +++ F +P+
Sbjct: 18 HVLLVPTA-------SFFIA-SQ--LQEQFNK-------------ILPE----------- 43
Query: 171 RTCVVVAEERPR--IHLTSAFSKLFSALGLSPRAVSTSFGCRVNIAICLQLTKLE---LR 225
T A++ P L F LG V S + + + L LT+ E L
Sbjct: 44 PTEGFAADDEPTTPAELVGKF------LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLE 97
Query: 226 SPSIH 230
IH
Sbjct: 98 GNDIH 102
Score = 29.6 bits (66), Expect = 1.1
Identities = 23/165 (13%), Positives = 48/165 (29%), Gaps = 43/165 (26%)
Query: 84 RHIALCLDPYC-GLGFALWVLSSVYSGHHSILIPPSEVEVN------PALWLSAVSQYRV 136
+ A+ + G + + S + ++ PAL L + +
Sbjct: 1687 NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED 1746
Query: 137 ---------RDTFC--SYGVME---LCTKGLSGSIP-----QL-KARNIALGCVRTCVVV 176
TF S G E L L+ + ++ R + +
Sbjct: 1747 LKSKGLIPADATFAGHSLG--EYAALA--SLADVMSIESLVEVVFYRGMT---------M 1793
Query: 177 AEERPRIHLTSAFSKLFSALGLSPRAVSTSFGCRVNIAICLQLTK 221
PR L + + + ++P V+ SF + ++ K
Sbjct: 1794 QVAVPRDELGRS---NYGMIAINPGRVAASFSQEALQYVVERVGK 1835
>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 = 39.1 bits (90), Expect = 0.001
Identities = 38/221 (17%), Positives = 76/221 (34%), Gaps = 37/221 (16%)
Query: 5 LLSEASNVVDIKSWPTILDTD-DMPKKKLAALYRAPTAEMLAYLDF-SVSTTGMLAGIKM 62
LLS+ +V K +L + + R P+ Y++ K
Sbjct: 71 LLSKQEEMVQ-KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 63 SHAAVTSLCRSMKL---ACELYPSRHIALCLDPYCG-LGFALWVL-SSVYSGHHSILIPP 117
+ V+ L +KL EL P++++ + G LG + V +
Sbjct: 130 N---VSRLQPYLKLRQALLELRPAKNVLI-----DGVLGSGKTWVALDVCLSYKVQCKMD 181
Query: 118 SEVEVNPALWLSAVSQYRVRDTFCSYGVMELCTKGLSGSIPQLKARNIALGCVRTCVVVA 177
++ WL+ + +T V+E+ K L P +R+ ++ +
Sbjct: 182 FKI-----FWLN-LKNCNSPET-----VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 178 EERPRIHLTSAFSKLF--SALGL----SPRAVST-SFGCRV 211
+ R L SK + L L + +A + + C++
Sbjct: 231 QAELRRLL---KSKPYENCLLVLLNVQNAKAWNAFNLSCKI 268
Score = 29.8 bits (66), Expect = 0.96
Identities = 35/184 (19%), Positives = 53/184 (28%), Gaps = 64/184 (34%)
Query: 2 SLGLLSEASNVVDIKSWPTILDTDDMPKKK----------LAALYRAPTAEMLAYLDF-- 49
LL +D + D+P++ +A R + LA D
Sbjct: 303 VKSLLL---KYLDCR-------PQDLPREVLTTNPRRLSIIAESIR----DGLATWDNWK 348
Query: 50 SVSTTGMLAGIKMSHAAVTS-LCRSMKLACELYP-SRHI---ALCLDPYCGLGFALW--- 101
V+ + I+ S + R M ++P S HI L L +W
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL---------IWFDV 399
Query: 102 -------VL--------------SSVYSGHHSILIPPSEVEVNPALWLSAVSQYRVRDTF 140
V+ S S L ++E AL S V Y + TF
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459
Query: 141 CSYG 144
S
Sbjct: 460 DSDD 463
>2d1s_A Luciferase, luciferin 4-monooxygenase; alpha/beta, beta barrel,
alpha+beta, riken structural genomics/proteomics
initiative, RSGI; HET: SLU; 1.30A {Luciola cruciata}
PDB: 2d1q_A* 2d1r_A* 2d1t_A*
Length = 548
Score = 36.0 bits (84), Expect = 0.008
Identities = 17/139 (12%), Positives = 49/139 (35%), Gaps = 14/139 (10%)
Query: 5 LLSEASNVVDIKSWPTILDTDDMPKKKLAALYRAP--TAEMLAYLDFSVSTTGMLAGIKM 62
+L + + T + + P + ++ E +A + S +TG+ G+++
Sbjct: 153 ILDSKVDYRGYQCLDTFIKRNTPPGFQASSFKTVEVDRKEQVALIMNSSGSTGLPKGVQL 212
Query: 63 SHAAVTSLCRSMK--LACELYPSRHIALCLDPYC---GLGFALWVLSSVYSGHHSILIPP 117
+H + + + + L + P+ G+ L + G +++
Sbjct: 213 THENIVTRFSHARDPIYGNQVSPGTAVLTVVPFHHGFGMFT---TLGYLICGFRVVMLT- 268
Query: 118 SEVEVNPALWLSAVSQYRV 136
+ + +L + Y+
Sbjct: 269 ---KFDEETFLKTLQDYKC 284
>3rix_A Luciferase, luciferin 4-monooxygenase; oxidoreductase,
photoprotein, luminescence, aspulvinone, natural product
extracts; HET: 923; 1.70A {Photinus pyralis} PDB: 1ba3_A
1lci_A* 3ies_A* 3iep_A* 3ier_A* 3qya_A
Length = 550
Score = 34.1 bits (79), Expect = 0.034
Identities = 18/139 (12%), Positives = 45/139 (32%), Gaps = 14/139 (10%)
Query: 5 LLSEASNVVDIKSWPTILDTDDMPKKKLAALYRAP--TAEMLAYLDFSVSTTGMLAGIKM 62
++ ++ +S T + + P + +A + S +TG+ G+ +
Sbjct: 151 IMDSKTDYQGFQSMYTFVTSHLPPGFNEYDFVPESFDRDKTIALIMNSSGSTGLPKGVAL 210
Query: 63 SHAAVTSLCRSMK--LACELYPSRHIALCLDPYC---GLGFALWVLSSVYSGHHSILIPP 117
H + + L + P+ G+ L + G +L+
Sbjct: 211 PHRTACVRFSHARDPIFGNQIIPDTAILSVVPFHHGFGMFT---TLGYLICGFRVVLMY- 266
Query: 118 SEVEVNPALWLSAVSQYRV 136
L+L ++ Y++
Sbjct: 267 ---RFEEELFLRSLQDYKI 282
>3nwr_A A rubisco-like protein; lyase; HET: KCX; 1.50A {Burkholderia
fungorum}
Length = 432
Score = 32.3 bits (73), Expect = 0.11
Identities = 13/85 (15%), Positives = 28/85 (32%), Gaps = 3/85 (3%)
Query: 38 APTAEMLAYLDFSV---STTGMLAGIKMSHAAVTSLCRSMKLACELYPSRHIALCLDPYC 94
M + + + M + +A+ SL R+ L + + + + DP
Sbjct: 238 DDLDAMRRHAELVEREGGSCVMASINWCGFSAIQSLRRTTPLVLHAHRNGYGMMSRDPAL 297
Query: 95 GLGFALWVLSSVYSGHHSILIPPSE 119
G+ F + SG + +
Sbjct: 298 GMSFQAYQTLWRLSGVDHMHVHGLA 322
>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 = 30.7 bits (68), Expect = 0.23
Identities = 10/20 (50%), Positives = 11/20 (55%), Gaps = 5/20 (25%)
Query: 30 KKLAA---LYRAP-TAEMLA 45
KKL A LY A +A LA
Sbjct: 23 KKLQASLKLY-ADDSAPALA 41
>3r44_A Fatty acyl COA synthetase FADD13 (fatty-acyl-COA synthetase);
ligase; HET: HIS; 1.80A {Mycobacterium tuberculosis}
PDB: 3t5c_A 3t5b_A
Length = 517
Score = 29.8 bits (68), Expect = 0.66
Identities = 20/92 (21%), Positives = 32/92 (34%), Gaps = 11/92 (11%)
Query: 53 TTGMLAGIKMSHAAVTSLCRSMKLACELYPSRHIALCLDPYC---GLGFALWVLSSVYSG 109
TTG G+ +H +V S S ++ + L L P L V+ S G
Sbjct: 181 TTGHPKGVVHTHESVHSAASSWASTIDVRYRDRLLLPL-PMFHVAALT---TVIFSAMRG 236
Query: 110 HHSILIPPSEVEVNPALWLSAVSQYRVRDTFC 141
I +P + + S + + RV
Sbjct: 237 VTLISMP----QFDATKVWSLIVEERVCIGGA 264
>2d69_A Ribulose bisphosphate carboxylase; alpha/beta barrel, structural
genomics, NPPSFA, national Pro protein structural and
functional analyses; 1.90A {Pyrococcus horikoshii} SCOP:
c.1.14.1 d.58.9.1 PDB: 2cxe_A 2cwx_A
Length = 430
Score = 29.7 bits (66), Expect = 0.74
Identities = 13/89 (14%), Positives = 28/89 (31%), Gaps = 6/89 (6%)
Query: 37 RAPTAEMLAYLDFSVSTTG---MLAGIKMSHAAVTSL---CRSMKLACELYPSRHIALCL 90
P M + + G M+ + +A+ + + LA + + H A
Sbjct: 228 TGPVNIMEKRAEMVANEGGQYVMIDIVVAGWSALQYMREVTEDLGLAIHAHRAMHAAFTR 287
Query: 91 DPYCGLGFALWVLSSVYSGHHSILIPPSE 119
+P G+ ++ G I +
Sbjct: 288 NPRHGITMLALAKAARMIGVDQIHTGTAV 316
>3ivr_A Putative long-chain-fatty-acid COA ligase; structural genomics,
PSI-2, protein S initiative, fatty acid synthesis; HET:
GOL; 2.00A {Rhodopseudomonas palustris}
Length = 509
Score = 29.8 bits (68), Expect = 0.74
Identities = 17/91 (18%), Positives = 31/91 (34%), Gaps = 11/91 (12%)
Query: 53 TTGMLAGIKMSHAAVTSLCRSMKLACELYPSRHIALCLDPYC---GLGFALWVLSSVYSG 109
G G +S + S+ A L + L P GLG +L+ +G
Sbjct: 171 VGGRPRGALISQGNLLIAQSSLVDAWRLTEADVNLGML-PLFHVTGLG---LMLTLQQAG 226
Query: 110 HHSILIPPSEVEVNPALWLSAVSQYRVRDTF 140
S++ + +PA + ++V
Sbjct: 227 GASVIAA----KFDPAQAARDIEAHKVTVMA 253
>3p8k_A Hydrolase, carbon-nitrogen family; HET: PGE; 1.70A {Staphylococcus
aureus subsp}
Length = 281
Score = 28.0 bits (63), Expect = 2.5
Identities = 13/73 (17%), Positives = 20/73 (27%), Gaps = 18/73 (24%)
Query: 155 GSIPQL---KARNIALGCVRTCVVVAEE-----RPR-IHLTSAF--SKLFSALGLSPRAV 203
GS+ + + N T V + +HL + +A
Sbjct: 101 GSVSNIRNNQIFN-------TAFSVNKSGQLINEYDKVHLVPMLREHEFLTAGEYVAEPF 153
Query: 204 STSFGCRVNIAIC 216
S G V IC
Sbjct: 154 QLSDGTYVTQLIC 166
>3c5e_A Acyl-coenzyme A synthetase ACSM2A, mitochondrial; middle-chain
acyl-COA synthetase, xenobiotic/medium-chain FA COA
ligase; HET: ATP; 1.60A {Homo sapiens} PDB: 2vze_A
3b7w_A* 3day_A* 3eq6_A* 3eyn_A* 3gpc_A* 2wd9_A*
Length = 570
Score = 26.4 bits (59), Expect = 8.6
Identities = 22/137 (16%), Positives = 52/137 (37%), Gaps = 14/137 (10%)
Query: 12 VVDIKSWPTILDTDDMPKKKLAALYRAPT-AEMLAYLDFSVSTTGMLAGIKMSHAAVTSL 70
+V KS L+ + + + T ++ + + F+ T+G+ + S++++
Sbjct: 175 LVSEKSCDGWLNFKKLLNEASTTHHCVETGSQEASAIYFTSGTSGLPKMAEHSYSSLGLK 234
Query: 71 CRSMKLACELYPSRHIALCL-DPYCGLGFALWVLSSVYS----GHHSILIPPSEVEVNPA 125
+ L S I + D G+ L +L S+ G + + +P
Sbjct: 235 AKMDAGWTGLQASD-IMWTISDT----GWILNILCSLMEPWALGA-CTFVHLLP-KFDPL 287
Query: 126 LWLSAVSQYRVRDTFCS 142
+ L +S Y ++ +
Sbjct: 288 VILKTLSSYPIK-SMMG 303
>4dg8_A PA1221; ANL superfamily, adenylation domain, peptidyl carrier
protei ribosomal peptide synthetase, NRPS, valine
adenylation, LIG; HET: AMP; 2.15A {Pseudomonas
aeruginosa} PDB: 4dg9_A*
Length = 620
Score = 26.3 bits (59), Expect = 9.6
Identities = 15/51 (29%), Positives = 24/51 (47%)
Query: 22 LDTDDMPKKKLAALYRAPTAEMLAYLDFSVSTTGMLAGIKMSHAAVTSLCR 72
+ +P + A+ +AY++FS TTG I +HA +T LC
Sbjct: 144 VPVRHLPAAPASVARPCFAADQIAYINFSSGTTGRPKAIACTHAGITRLCL 194
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
0.323 0.134 0.409
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,399,695
Number of extensions: 193149
Number of successful extensions: 432
Number of sequences better than 10.0: 1
Number of HSP's gapped: 425
Number of HSP's successfully gapped: 18
Length of query: 230
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 140
Effective length of database: 4,188,903
Effective search space: 586446420
Effective search space used: 586446420
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.2 bits)