RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16949
(232 letters)
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 385 bits (990), Expect = e-130
Identities = 158/225 (70%), Positives = 191/225 (84%), Gaps = 1/225 (0%)
Query: 8 FDQDEEAYVCIYSSRNSDTILFHHQGGVDIGDVDAKALKLEIPVGQTGVTEEQVTSKLLI 67
Q EE YVCIY++R D +LFHH+GGVD+GDVDAKA KL + V + + E + LL+
Sbjct: 113 HSQAEEFYVCIYATREGDYVLFHHEGGVDVGDVDAKAQKLLVGVDE-KLNPEDIKKHLLV 171
Query: 68 NVAPAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTNDTIYILDLAAKLDSTADFICRA 127
+ KK ++A F++ L+N Y +LYFTYLEINPLVVT D +Y+LDLAAK+D+TAD+IC+
Sbjct: 172 HAPEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYICKV 231
Query: 128 QWGNIDYPPPFGRDAYPEEAYIADLDSKSGASLKLTILNKKGRIWTMVAGGGASVVYSDT 187
+WG+I++PPPFGR+AYPEEAYIADLD+KSGASLKLT+LN KGRIWTMVAGGGASVVYSDT
Sbjct: 232 KWGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDT 291
Query: 188 ICDLGGASELANYGEYSGAPSEQQTYEYAKTILSLMTQEKHPQGK 232
ICDLGG +ELANYGEYSGAPSEQQTY+YAKTILSLMT+EKHP GK
Sbjct: 292 ICDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK 336
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 307 bits (789), Expect = e-104
Identities = 158/224 (70%), Positives = 190/224 (84%), Gaps = 1/224 (0%)
Query: 9 DQDEEAYVCIYSSRNSDTILFHHQGGVDIGDVDAKALKLEIPVGQTGVTEEQVTSKLLIN 68
Q EE YVCIY++R D +LFHH+GGVD+GDVDAKA KL + V + E + LL++
Sbjct: 114 SQAEEFYVCIYATREGDYVLFHHEGGVDVGDVDAKAQKLLVGVD-EKLNPEDIKKHLLVH 172
Query: 69 VAPAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTNDTIYILDLAAKLDSTADFICRAQ 128
KK ++A F++ L+N Y +LYFTYLEINPLVVT D +Y+LDLAAK+D+TAD+IC+ +
Sbjct: 173 APEDKKEILASFISGLFNFYEDLYFTYLEINPLVVTKDGVYVLDLAAKVDATADYICKVK 232
Query: 129 WGNIDYPPPFGRDAYPEEAYIADLDSKSGASLKLTILNKKGRIWTMVAGGGASVVYSDTI 188
WG+I++PPPFGR+AYPEEAYIADLD+KSGASLKLT+LN KGRIWTMVAGGGASVVYSDTI
Sbjct: 233 WGDIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTI 292
Query: 189 CDLGGASELANYGEYSGAPSEQQTYEYAKTILSLMTQEKHPQGK 232
CDLGG +ELANYGEYSGAPSEQQTY+YAKTILSLMT+EKHP GK
Sbjct: 293 CDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGK 336
>2fp4_B Succinyl-COA ligase [GDP-forming] beta-chain, mitochondrial; active
site phosphohistidine residue; HET: NEP GTP; 2.08A {Sus
scrofa} SCOP: c.23.4.1 d.142.1.4 PDB: 2fpg_B* 2fpi_B*
2fpp_B* 1euc_B* 1eud_B*
Length = 395
Score = 59.0 bits (144), Expect = 1e-10
Identities = 34/127 (26%), Positives = 56/127 (44%), Gaps = 17/127 (13%)
Query: 9 DQDEEAYVCIYSSRNSDTILF--HHQGGVDIGDVDAKA----LKLEIPVGQTGVTEEQ-- 60
D E Y+ I R+ + + QGGVDI +V A K +I + G+ + Q
Sbjct: 110 DISRETYLAILMDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDI-IEGIKDSQAQ 168
Query: 61 -VTSKLLINVAPAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTND-TIYILDLAAKL- 117
+ L +A A + LYN+++ + T +E+NP T + + D AK+
Sbjct: 169 RMAENLGFLGPLQNQA--ADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFD--AKIN 224
Query: 118 -DSTADF 123
D A+F
Sbjct: 225 FDDNAEF 231
>2nu8_B SCS-beta, succinyl-COA synthetase beta chain; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.23.4.1 d.142.1.4
PDB: 1scu_B* 2nu6_B* 1jkj_B* 2nu7_B* 2nu9_B* 2nua_B*
2scu_B* 1jll_B* 1cqj_B* 1cqi_B*
Length = 388
Score = 57.9 bits (141), Expect = 4e-10
Identities = 33/127 (25%), Positives = 53/127 (41%), Gaps = 17/127 (13%)
Query: 9 DQDEEAYVCIYSSRNSDTILF--HHQGGVDIGDVDAKA----LKLEIPVGQTGVTEEQ-- 60
D +E Y+ R+S ++F +GGV+I V + K+ + TG Q
Sbjct: 103 DIAKELYLGAVVDRSSRRVVFMASTEGGVEIEKVAEETPHLIHKVALDP-LTGPMPYQGR 161
Query: 61 -VTSKLLINVAPAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTND-TIYILDLAAKL- 117
+ KL + ++ K L +++ +EINPLV+T + LD KL
Sbjct: 162 ELAFKLGLEGKLVQQF--TKIFMGLATIFLERDLALIEINPLVITKQGDLICLD--GKLG 217
Query: 118 -DSTADF 123
D A F
Sbjct: 218 ADGNALF 224
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 53.7 bits (130), Expect = 1e-08
Identities = 37/128 (28%), Positives = 53/128 (41%), Gaps = 20/128 (15%)
Query: 9 DQDEEAYVCIYSSRNSDTILF--HHQGGVDIGDVDAKA----LKLEI-PVGQTGVTEEQ- 60
D +E Y + R ++ +GGVDI +V A+ K I P G +
Sbjct: 95 DIAKEYYAGLILDRAKKRVVLMLSKEGGVDIEEVAAERPEAIHKFWIDPH--KGFRPFEA 152
Query: 61 --VTSKLLINVAPAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTND-TIYILDLAAK- 116
+ + + +A+ + ALY Y + + EINPLVVT D I D AK
Sbjct: 153 REMVKRAGL---EGNLNKLAQVLVALYRAYEGVDASIAEINPLVVTTDGGIVAAD--AKI 207
Query: 117 -LDSTADF 123
LD A F
Sbjct: 208 VLDDNALF 215
>3txv_A Probable tagatose 6-phosphate kinase; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.80A {Sinorhizobium meliloti}
Length = 450
Score = 27.3 bits (60), Expect = 4.5
Identities = 14/70 (20%), Positives = 20/70 (28%), Gaps = 4/70 (5%)
Query: 71 PAKKAMVAKFVTALYNMYVNLYFTYLEINPLVVTNDTIYILDLAAKLDSTADF--ICRAQ 128
PA +AM A+ Y FT L ++ + L A A +
Sbjct: 105 PADEAM--AKAEAMITAYAKAGFTKLHLDTSMGCAGEPTALPDATTAARAARLAAVAEDA 162
Query: 129 WGNIDYPPPF 138
G P
Sbjct: 163 VGGRGGVLPV 172
>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 = 27.7 bits (61), Expect = 4.7
Identities = 30/158 (18%), Positives = 42/158 (26%), Gaps = 60/158 (37%)
Query: 77 VAKFV--TALYNMYVNLYFTYLEI---NP--LVVTND-----TIYILDLAAKLDSTADFI 124
A+ V A + F+ L+I NP L + I A ++ D
Sbjct: 1641 AAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVD-- 1698
Query: 125 CRAQWGNIDYPPPFGRDAYPEEAYIADLDSKSGASLKLT----------------ILNKK 168
G + F +Y S+ G L T L K
Sbjct: 1699 -----GKLKTEKIFKEINEHSTSYT--FRSEKGL-LSATQFTQPALTLMEKAAFEDLKSK 1750
Query: 169 GRI--WTMVAGGGASVVYSDTICDLGGASELANYGEYS 204
G I AG +S L GEY+
Sbjct: 1751 GLIPADATFAG------HS-----------L---GEYA 1768
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 26.8 bits (60), Expect = 7.7
Identities = 5/44 (11%), Positives = 16/44 (36%), Gaps = 8/44 (18%)
Query: 187 TICDLGGASELANYGEYSG-----APSEQQTYEYAKTILSLMTQ 225
+ +LGGA+ + S ++ + + ++ +
Sbjct: 228 SAEELGGAT---THTRKSSVADAAFENDVEALAEVRRLVDFLPL 268
>1x0u_A Hypothetical methylmalonyl-COA decarboxylase ALPH; lyase; 2.20A
{Sulfolobus tokodaii}
Length = 522
Score = 26.4 bits (59), Expect = 9.0
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 8/44 (18%)
Query: 187 TICDLGGASELANYGEYSG-----APSEQQTYEYAKTILSLMTQ 225
+ DLGGA + SG SEQ+ K +LS +
Sbjct: 215 SFQDLGGAV---VHATKSGVVHFMVDSEQEAINLTKRLLSYLPS 255
>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 = 26.7 bits (58), Expect = 9.3
Identities = 20/125 (16%), Positives = 33/125 (26%), Gaps = 39/125 (31%)
Query: 122 DF-ICRAQWGNIDYPPPFGRDAYPEEAYIADLDSK----------SGASLKLTILNKKGR 170
DF Q+ D F E+A++ + D K S + I+ K
Sbjct: 8 DFETGEHQYQYKDILSVF------EDAFVDNFDCKDVQDMPKSILSKEEID-HIIMSKDA 60
Query: 171 -------IWTMVAGGGASVVYSDTICDLGGASELANYG--------EYSGAPSEQQTYEY 215
WT+++ +V NY E + Y
Sbjct: 61 VSGTLRLFWTLLS-KQEEMVQ-----KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 216 AKTIL 220
+ L
Sbjct: 115 QRDRL 119
>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint
center for structural genomics, JCSG, protein structu
initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima}
SCOP: c.14.1.4 c.14.1.4
Length = 527
Score = 26.4 bits (59), Expect = 9.8
Identities = 11/42 (26%), Positives = 21/42 (50%), Gaps = 8/42 (19%)
Query: 187 TICDLGGASELANYGEYSG-----APSEQQTYEYAKTILSLM 223
+ DLGGA + + SG A ++++ +T+LS +
Sbjct: 221 SQEDLGGAM---VHNQKSGNAHFLADNDEKAMSLVRTLLSYL 259
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
0.315 0.133 0.385
Gapped
Lambda K H
0.267 0.0827 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,540,507
Number of extensions: 207992
Number of successful extensions: 256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 252
Number of HSP's successfully gapped: 15
Length of query: 232
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 142
Effective length of database: 4,188,903
Effective search space: 594824226
Effective search space used: 594824226
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 (21.6 bits)
S2: 56 (25.2 bits)