RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 030169
(182 letters)
>2fp4_A Succinyl-COA ligase [GDP-forming] alpha-chain, mitochondrial;
active site phosphohistidine residue; HET: NEP GTP;
2.08A {Sus scrofa} SCOP: c.2.1.8 c.23.4.1 PDB: 2fpg_A*
2fpi_A* 2fpp_A* 1euc_A* 1eud_A*
Length = 305
Score = 225 bits (576), Expect = 1e-74
Identities = 81/113 (71%), Positives = 93/113 (82%), Gaps = 1/113 (0%)
Query: 45 SAAASHPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPV 104
S AS ++VDKNT+VICQG TGK GTFH++QA+EYGT +V GG TP KGG HLGLPV
Sbjct: 1 SYTASRKHLYVDKNTKVICQGFTGKQGTFHSQQALEYGTNLV-GGTTPGKGGKTHLGLPV 59
Query: 105 FNSVAEAKAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
FN+V EAK +T A ASVIYVPPPFAAAAI EA++AE+ LVVCITEGIPQ DMV
Sbjct: 60 FNTVKEAKEQTGATASVIYVPPPFAAAAINEAIDAEVPLVVCITEGIPQQDMV 112
>2nu8_A Succinyl-COA ligase [ADP-forming] subunit alpha; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.2.1.8 c.23.4.1
PDB: 2nu9_A* 2nu7_A* 2nua_A* 2nu6_A* 2scu_A* 1jll_A*
1scu_A* 1jkj_A* 1cqj_A* 1cqi_A*
Length = 288
Score = 222 bits (569), Expect = 6e-74
Identities = 70/106 (66%), Positives = 84/106 (79%), Gaps = 1/106 (0%)
Query: 52 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEA 111
++ +DKNT+VICQG TG GTFH+EQAI YGTKMV GGVTP KGGT HLGLPVFN+V EA
Sbjct: 1 SILIDKNTKVICQGFTGSQGTFHSEQAIAYGTKMV-GGVTPGKGGTTHLGLPVFNTVREA 59
Query: 112 KAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
A T A ASVIYVP PF +I+EA++A + L++ ITEGIP DM+
Sbjct: 60 VAATGATASVIYVPAPFCKDSILEAIDAGIKLIITITEGIPTLDML 105
>2yv1_A Succinyl-COA ligase [ADP-forming] subunit alpha; COA-binding
domain, structural genomics, NPPSFA; 1.70A
{Methanocaldococcus jannaschii}
Length = 294
Score = 222 bits (569), Expect = 8e-74
Identities = 59/106 (55%), Positives = 80/106 (75%), Gaps = 1/106 (0%)
Query: 52 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEA 111
+ +D+NT+ I QGITG+ G+FHT++ +E GTK+V GGVTP KGG G+PVF++V EA
Sbjct: 7 MILLDENTKAIVQGITGRQGSFHTKKMLECGTKIV-GGVTPGKGGQNVHGVPVFDTVKEA 65
Query: 112 KAETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
ET ANASVI+VP PFA A+ EA++A ++L+V ITE IP HD +
Sbjct: 66 VKETDANASVIFVPAPFAKDAVFEAIDAGIELIVVITEHIPVHDTM 111
>1oi7_A Succinyl-COA synthetase alpha chain; SCS, ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 1.23A {Thermus thermophilus} SCOP: c.2.1.8
c.23.4.1
Length = 288
Score = 220 bits (564), Expect = 4e-73
Identities = 58/105 (55%), Positives = 77/105 (73%), Gaps = 1/105 (0%)
Query: 53 VFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAK 112
+ V++ TRV+ QGITG+ G FHT+Q + YGTK+V GVTP KGG E LG+PV+++V EA
Sbjct: 2 ILVNRETRVLVQGITGREGQFHTKQMLTYGTKIV-AGVTPGKGGMEVLGVPVYDTVKEAV 60
Query: 113 AETKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
A + +AS+I+VP P AA A +EA A + L+V ITEGIP DMV
Sbjct: 61 AHHEVDASIIFVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMV 105
>2yv2_A Succinyl-COA synthetase alpha chain; COA-binding domain, ligase,
structural genomics, NPPSFA; 2.20A {Aeropyrum pernix}
Length = 297
Score = 219 bits (560), Expect = 2e-72
Identities = 60/107 (56%), Positives = 79/107 (73%), Gaps = 2/107 (1%)
Query: 52 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEA 111
AV VD TRV+ QGITG+ G+FH + +EYGTK+V GVTP KGG+E G+PV++SV EA
Sbjct: 7 AVLVDSETRVLVQGITGREGSFHAKAMLEYGTKVV-AGVTPGKGGSEVHGVPVYDSVKEA 65
Query: 112 KAE-TKANASVIYVPPPFAAAAIMEAMEAELDLVVCITEGIPQHDMV 157
AE + N S+++VP PFA A+ EA++A + LVV ITEGIP HD +
Sbjct: 66 LAEHPEINTSIVFVPAPFAPDAVYEAVDAGIRLVVVITEGIPVHDTM 112
>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_B*
Length = 334
Score = 181 bits (461), Expect = 5e-57
Identities = 24/118 (20%), Positives = 46/118 (38%), Gaps = 12/118 (10%)
Query: 52 AVFVDKNTRVICQGITGK--NGTFHTEQAIEYGTKMVVGGVTPKKG--------GTEHLG 101
++T+ I G+ + G + V V P G G + +
Sbjct: 4 TTLFSRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFTGDHKQKFYWGHKEIL 63
Query: 102 LPVFNSVAEA-KAETKANASVIYVPPPFAAAAIMEAME-AELDLVVCITEGIPQHDMV 157
+PVF ++A+A + + + + + A + ME M A++ + I EGIP+
Sbjct: 64 IPVFKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTR 121
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 175 bits (444), Expect = 2e-51
Identities = 34/174 (19%), Positives = 59/174 (33%), Gaps = 18/174 (10%)
Query: 2 ARQALAKLIGSIGSRRPSTASSVSHYRLSSSAAPAAHSRNYGSSAAASH------PAVFV 55
L GS + PS +S S R A + S
Sbjct: 434 TANFLLNASGSTSTPAPSRTASFSESRADEVAPAKKAKPAMPQDSVPSPRSLQGKSTTLF 493
Query: 56 DKNTRVICQGITGKN--GTFHTEQAIEYGTKMVVGGVTPKKG--------GTEHLGLPVF 105
++T+ I G+ + G + V V P G G + + +PVF
Sbjct: 494 SRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFTGDHKQKFYWGHKEILIPVF 553
Query: 106 NSVAEA-KAETKANASVIYVPPPFAAAAIMEAME-AELDLVVCITEGIPQHDMV 157
++A+A + + + + + A + ME M A++ + I EGIP+
Sbjct: 554 KNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTR 607
>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU
genomics, protein structure initiative; 2.07A
{Escherichia coli}
Length = 480
Score = 112 bits (282), Expect = 8e-30
Identities = 16/82 (19%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 77 QAIEYGTKMVVGGVTPKKGGTEHL-GLPVFNSVAEAKAETKANASVIYVPPPFAAAAIME 135
Q +E K + G ++ L + ++S + AN ++I V +AA +
Sbjct: 2 QQLEEALK----QLAQGSGSSQALTQVRRWDSACQK--LPDANLALISVAGEYAAELANQ 55
Query: 136 AMEAELDLVVCITEGIPQHDMV 157
A++ L+ V+ ++ + D +
Sbjct: 56 ALDRNLN-VMMFSDNVTLEDEI 76
>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 = 37.7 bits (87), Expect = 0.002
Identities = 37/207 (17%), Positives = 59/207 (28%), Gaps = 76/207 (36%)
Query: 2 ARQALAKLIGSIGSRRPSTASSVSHYR--------LSS-SAAPAAHSRNYGSSAAASHPA 52
+ + L++L R A + L + S P ++Y S S P
Sbjct: 191 SAETLSEL-----IRTTLDAEK--VFTQGLNILEWLENPSNTP---DKDYLLSIPISCPL 240
Query: 53 VFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVVGGVTPK------KGGTEHL-GLPVF 105
+ G+ Q Y + G TP KG T H GL
Sbjct: 241 I-----------GVI---------QLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT- 279
Query: 106 NSVAEAKAETKAN-----------------ASVIYVPPPFAAAAIMEAMEAELDLVVCIT 148
+VA A+ ++ + P +I+E
Sbjct: 280 -AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLEN-------N 331
Query: 149 EGIPQHDM--VINFTRVNIL-LVAFLN 172
EG+P M + N T+ + V N
Sbjct: 332 EGVPSP-MLSISNLTQEQVQDYVNKTN 357
Score = 29.6 bits (66), Expect = 0.66
Identities = 22/135 (16%), Positives = 38/135 (28%), Gaps = 41/135 (30%)
Query: 27 YRLSSSA------APAAHSRNYGSSAAASHPAVFVDKNTRVICQGITGKNGTFHTEQAI- 79
Y+ S +A A YG S V N + G+ G + I
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILD-----IVINNPVNLTIHFGGEKG-----KRIR 1685
Query: 80 EYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYVPP-----------P- 127
E + M+ T G + +F + E + S + P
Sbjct: 1686 ENYSAMIF--ETIVDGKLKTE--KIFKEINEH------STSYTFRSEKGLLSATQFTQPA 1735
Query: 128 -FAAA-AIMEAMEAE 140
A E ++++
Sbjct: 1736 LTLMEKAAFEDLKSK 1750
Score = 26.2 bits (57), Expect = 9.5
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 8/60 (13%)
Query: 122 IYVPPP--FAAAAIMEAMEAELDLVVCITEGIPQHDMVINFTRVNILLVAFLNFIMKLTR 179
+ VP F A+ + E L TEG D T L+ FL ++ L
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEP---TEGFAADD---EPTTPAELVGKFLGYVSSLVE 73
>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 = 32.2 bits (72), Expect = 0.048
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 13/34 (38%)
Query: 3 RQALAKLIGSIGSRRPSTASSVSHYRLSSSAAPA 36
+QAL KL +S+ Y + +APA
Sbjct: 19 KQALKKL-----------QASLKLY--ADDSAPA 39
Score = 31.8 bits (71), Expect = 0.055
Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 110 EAKAETKANASV-IYVPPPFAAAAIMEAME 138
E +A K AS+ +Y A AI ME
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>2vt3_A REX, redox-sensing transcriptional repressor REX; transcriptional
regulation, redox poise; HET: ATP; 2.0A {Bacillus
subtilis} PDB: 2vt2_A*
Length = 215
Score = 29.5 bits (66), Expect = 0.50
Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 6/89 (6%)
Query: 55 VDKNTRVICQGITGKNGT--FHTEQAIEYGTKMVVGG--VTPKKGGTEHLGLPVFNSVAE 110
D+ T VI G+ G GT H TK + + K GTE G+PV+N
Sbjct: 82 QDEMTDVILIGV-GNLGTAFLHYNFTKNNNTK-ISMAFDINESKIGTEVGGVPVYNLDDL 139
Query: 111 AKAETKANASVIYVPPPFAAAAIMEAMEA 139
+ + +++ VP A + +
Sbjct: 140 EQHVKDESVAILTVPAVAAQSITDRLVAL 168
>2duw_A Putative COA-binding protein; ligand binding protein; NMR
{Klebsiella pneumoniae}
Length = 145
Score = 28.9 bits (65), Expect = 0.51
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 4/61 (6%)
Query: 79 IEYGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYVPPPFAAAAIMEAME 138
++ G ++ V+PK G LG + ++A+ + ++ A EA+
Sbjct: 37 LDQGYHVIP--VSPKVAGKTLLGQQGYATLADVPEKVD--MVDVFRNSEAAWGVAQEAIA 92
Query: 139 A 139
Sbjct: 93 I 93
>2ivf_A Ethylbenzene dehydrogenase alpha-subunit; anaerobic hydrocarbon
degradation, MOCO, Fe/S cluster, MO- B enzyme, DMSO
reductase family; HET: MES MGD MD1 HEM; 1.88A
{Aromatoleum aromaticum}
Length = 976
Score = 26.2 bits (57), Expect = 7.2
Identities = 19/142 (13%), Positives = 34/142 (23%), Gaps = 34/142 (23%)
Query: 26 HYRLSSSAAPAAHSRNYGSSAAASHPAVFVDKNTR-VICQG----ITGKNGTFHTEQAIE 80
+ +G + + T + +A
Sbjct: 216 DINVDIGDTYMGAFHTFGKMHMGYSADNL--LDAELIFMTCSNWSYTYPSSYHFLSEARY 273
Query: 81 YGTKMVVGGVTPKKGGTEHLGLPVFNSVAEAKAETKANASVIYVPP-PFAAAAIMEAMEA 139
G ++VV + P FN A+ ++VP + AA +
Sbjct: 274 KGAEVVV--IA-----------PDFNPTT-PAAD-------LHVPVRVGSDAAFWLGL-- 310
Query: 140 ELDLVVCITEGIPQHDMVINFT 161
V I E + V T
Sbjct: 311 ---SQVMIDEKLFDRQFVCEQT 329
>3epo_A Thiamine biosynthesis protein THIC; alpha-beta barrel, SAM
superfamily, biosynthetic protein; HET: MP5; 2.10A
{Caulobacter crescentus} PDB: 3epm_A* 3epn_A*
Length = 612
Score = 26.3 bits (58), Expect = 8.4
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 5/30 (16%)
Query: 81 YGTKMVVGGVTPKKGGTEHLGLPVFNSVAE 110
+GT M+ VTPK EHLGLP + V
Sbjct: 468 FGTAMLCY-VTPK----EHLGLPDRDDVKT 492
>1ual_A TRNA (guanine-N(1)-)-methyltransferase; spout class, TRMD,
tRNA(M1G37)methyltrans tRNA modification; HET: SAH;
1.80A {Haemophilus influenzae} SCOP: c.116.1.4 PDB:
1uak_A* 1uaj_A* 1uam_A* 3axz_A* 1p9p_A*
Length = 274
Score = 25.6 bits (57), Expect = 9.7
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 103 PVFNSVAEAKAETKANASVIYVPP---PFAAAAIME-AMEAELDLV 144
P+ +++ AKA A VIY+ P + E A +L LV
Sbjct: 86 PLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILV 131
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
0.318 0.130 0.372
Gapped
Lambda K H
0.267 0.0562 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,768,557
Number of extensions: 163394
Number of successful extensions: 412
Number of sequences better than 10.0: 1
Number of HSP's gapped: 392
Number of HSP's successfully gapped: 34
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.0 bits)