RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 019500
(340 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 = 562 bits (1452), Expect = 0.0
Identities = 211/306 (68%), Positives = 245/306 (80%), Gaps = 12/306 (3%)
Query: 36 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAK 95
++VDKNT+VICQG TGK GTFH++QA+EYGT +VGG TP KGG HLGLPVFNTV EAK
Sbjct: 8 HLYVDKNTKVICQGFTGKQGTFHSQQALEYGTNLVGGTTPGKGGKTHLGLPVFNTVKEAK 67
Query: 96 AETKANASAIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLV 155
+T A AS IYVPPPFAAAAI EA++AE+ LVVCITEGIPQ DMVRVK L Q KTRL+
Sbjct: 68 EQTGATASVIYVPPPFAAAAINEAIDAEVPLVVCITEGIPQQDMVRVKHRLLRQGKTRLI 127
Query: 156 GPNCPGVIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGG 215
GPNCPGVI PGECKIGIMPG+IHK GRIGIVSRSGTLTYEAV QTT VGLGQS CVGIGG
Sbjct: 128 GPNCPGVINPGECKIGIMPGHIHKKGRIGIVSRSGTLTYEAVHQTTQVGLGQSLCVGIGG 187
Query: 216 DPFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAAALIKESGTE---KPIVAFIAG 272
DPFNGT+F DC+ F+ DP TEGIILIGEIGG AEE+AA +K+ + KP+V+FIAG
Sbjct: 188 DPFNGTDFTDCLEIFLNDPATEGIILIGEIGGNAEENAAEFLKQHNSGPKSKPVVSFIAG 247
Query: 273 LTAPPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEV 332
LTAPPGRRMGHAG AI++GGKG A++KI L+ AGV V SPA++G + +
Sbjct: 248 LTAPPGRRMGHAG---------AIIAGGKGGAKEKITALQSAGVVVSMSPAQLGTTIYKE 298
Query: 333 FKQRGL 338
F++R +
Sbjct: 299 FEKRKM 304
>2yv2_A Succinyl-COA synthetase alpha chain; COA-binding domain, ligase,
structural genomics, NPPSFA; 2.20A {Aeropyrum pernix}
Length = 297
Score = 552 bits (1425), Expect = 0.0
Identities = 154/301 (51%), Positives = 204/301 (67%), Gaps = 11/301 (3%)
Query: 36 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAK 95
AV VD TRV+ QGITG+ G+FH + +EYGTK+V GVTP KGG+E G+PV+++V EA
Sbjct: 7 AVLVDSETRVLVQGITGREGSFHAKAMLEYGTKVVAGVTPGKGGSEVHGVPVYDSVKEAL 66
Query: 96 AE-TKANASAIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRL 154
AE + N S ++VP PFA A+ EA++A + LVV ITEGIP HD +R Q +
Sbjct: 67 AEHPEINTSIVFVPAPFAPDAVYEAVDAGIRLVVVITEGIPVHDTMRFVNYAR-QKGATI 125
Query: 155 VGPNCPGVIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIG 214
+GPNCPG I PG+ K+GIMPG+I K G + +VSRSGTLTYE + T G+GQST +GIG
Sbjct: 126 IGPNCPGAITPGQAKVGIMPGHIFKEGGVAVVSRSGTLTYEISYMLTRQGIGQSTVIGIG 185
Query: 215 GDPFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLT 274
GDP G +F + + F DPQTE ++LIGEIGG EE AA +IK+ KP++A+IAG T
Sbjct: 186 GDPIVGLSFTEALKLFQEDPQTEALVLIGEIGGDMEERAAEMIKKGEFTKPVIAYIAGRT 245
Query: 275 APPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEVFK 334
APP +RMGHAG AI+ G GT + K+K LREAGV V E+P ++ + + +
Sbjct: 246 APPEKRMGHAG---------AIIMMGTGTYEGKVKALREAGVEVAETPFEVPELVRKALR 296
Query: 335 Q 335
+
Sbjct: 297 R 297
>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 = 550 bits (1419), Expect = 0.0
Identities = 191/299 (63%), Positives = 226/299 (75%), Gaps = 11/299 (3%)
Query: 36 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAK 95
++ +DKNT+VICQG TG GTFH+EQAI YGTKMVGGVTP KGGT HLGLPVFNTV EA
Sbjct: 1 SILIDKNTKVICQGFTGSQGTFHSEQAIAYGTKMVGGVTPGKGGTTHLGLPVFNTVREAV 60
Query: 96 AETKANASAIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLV 155
A T A AS IYVP PF +ILEA++A + L++ ITEGIP DM+ VK L+ ++ R++
Sbjct: 61 AATGATASVIYVPAPFCKDSILEAIDAGIKLIITITEGIPTLDMLTVKVKLD-EAGVRMI 119
Query: 156 GPNCPGVIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGG 215
GPN PGVI PGECKIGI PG+IHKPG++GIVSRSGTLTYEAV QTT G GQSTCVGIGG
Sbjct: 120 GPNTPGVITPGECKIGIQPGHIHKPGKVGIVSRSGTLTYEAVKQTTDYGFGQSTCVGIGG 179
Query: 216 DPFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLTA 275
DP G+NF+D + F DPQTE I++IGEIGG+AEE+AAA IKE T KP+V +IAG+TA
Sbjct: 180 DPIPGSNFIDILEMFEKDPQTEAIVMIGEIGGSAEEEAAAYIKEHVT-KPVVGYIAGVTA 238
Query: 276 PPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEVFK 334
P G+RMGHAG AI++GGKGTA +K L AGV V S A IG A+ V K
Sbjct: 239 PKGKRMGHAG---------AIIAGGKGTADEKFAALEAAGVKTVRSLADIGEALKTVLK 288
>2yv1_A Succinyl-COA ligase [ADP-forming] subunit alpha; COA-binding
domain, structural genomics, NPPSFA; 1.70A
{Methanocaldococcus jannaschii}
Length = 294
Score = 546 bits (1410), Expect = 0.0
Identities = 143/300 (47%), Positives = 195/300 (65%), Gaps = 12/300 (4%)
Query: 36 AVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAK 95
+ +D+NT+ I QGITG+ G+FHT++ +E GTK+VGGVTP KGG G+PVF+TV EA
Sbjct: 7 MILLDENTKAIVQGITGRQGSFHTKKMLECGTKIVGGVTPGKGGQNVHGVPVFDTVKEAV 66
Query: 96 AETKANASAIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLV 155
ET ANAS I+VP PFA A+ EA++A ++L+V ITE IP HD + +++
Sbjct: 67 KETDANASVIFVPAPFAKDAVFEAIDAGIELIVVITEHIPVHDTMEFVNYAE-DVGVKII 125
Query: 156 GPNCPGVIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGG 215
GPN PG+ P K+GI+P + K G +G+VSRSGTLTYE Q G G STCVGIGG
Sbjct: 126 GPNTPGIASPKVGKLGIIPMEVLKEGSVGMVSRSGTLTYEIAHQIKKAGFGVSTCVGIGG 185
Query: 216 DPFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLTA 275
DP G + + + F D +TE I++IGEIGG AEE+AA I++ +KP++ +IAG +A
Sbjct: 186 DPIVGLRYKEVLDLFEKDDETEAIVMIGEIGGGAEEEAAKFIEK--MKKPVIGYIAGQSA 243
Query: 276 PPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEVFKQ 335
P G+RMGHAG AIV GKGTA+ K+K L EAG V ++ + I + + +
Sbjct: 244 PEGKRMGHAG---------AIVEKGKGTAESKMKALEEAGAYVAKNISDIPKLLAGILGK 294
>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 = 542 bits (1399), Expect = 0.0
Identities = 151/297 (50%), Positives = 198/297 (66%), Gaps = 11/297 (3%)
Query: 37 VFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAKA 96
+ V++ TRV+ QGITG+ G FHT+Q + YGTK+V GVTP KGG E LG+PV++TV EA A
Sbjct: 2 ILVNRETRVLVQGITGREGQFHTKQMLTYGTKIVAGVTPGKGGMEVLGVPVYDTVKEAVA 61
Query: 97 ETKANASAIYVPPPFAAAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLVG 156
+ +AS I+VP P AA A LEA A + L+V ITEGIP DMVR + +RL+G
Sbjct: 62 HHEVDASIIFVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMVRAVEEIK-ALGSRLIG 120
Query: 157 PNCPGVIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGGD 216
NCPG+I E KIGIMPG++ K GR+GI+SRSGTLTYEA + GLG +T VGIGGD
Sbjct: 121 GNCPGIISAEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGD 180
Query: 217 PFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLTAP 276
P GT F D + F DP+TE ++LIGEIGG+ EE+AAA +K+ KP+V FI G +AP
Sbjct: 181 PVIGTTFKDLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMK-KPVVGFIGGRSAP 239
Query: 277 PGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEVF 333
G+RMGHAG AI+ G GT + K++ EAG+ V ++ +I + +
Sbjct: 240 KGKRMGHAG---------AIIMGNVGTPESKLRAFAEAGIPVADTIDEIVELVKKAL 287
>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_B*
Length = 334
Score = 466 bits (1200), Expect = e-166
Identities = 87/324 (26%), Positives = 141/324 (43%), Gaps = 34/324 (10%)
Query: 36 AVFVDKNTRVICQGITGK--NGTFHTEQAIEY-GTKMVGGVTPKKG--------GTEHLG 84
++T+ I G+ + G + + V P G G + +
Sbjct: 4 TTLFSRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFTGDHKQKFYWGHKEIL 63
Query: 85 LPVFNTVAEA-KAETKANASAIYVPPPFAAAAILEAME-AELDLVVCITEGIPQHDMVRV 142
+PVF +A+A + + + + A + +E M A++ + I EGIP+ ++
Sbjct: 64 IPVFKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTRKL 123
Query: 143 KAALNNQSKTRLVGPNCPGVIKPGECKIG--------IMPGYIHKPGRIGIVSRSGTLTY 194
+ Q ++GP G IKPG KIG I+ +++PG + VSRSG ++
Sbjct: 124 IKKAD-QKGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYRPGSVAYVSRSGGMSN 182
Query: 195 EAVFQTTAVGLGQSTCVGIGGDPFNGTNFVDCVTKFIADPQTEGIILIGEIGGTAEEDAA 254
E + G V IGGD + G+ F+D V ++ P + I+++GEIGGT E
Sbjct: 183 ELNNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMIVVLGEIGGTEEYKIC 242
Query: 255 ALIKESGTEKPIVAFIAGLTA---PPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTL 311
IKE KPIV + G A + GHAG A + TA K + L
Sbjct: 243 RGIKEGRLTKPIVCWCIGTCATMFSSEVQFGHAG---------ACANQASETAVAKNQAL 293
Query: 312 REAGVTVVESPAKIGAAMLEVFKQ 335
+EAGV V S ++G + V++
Sbjct: 294 KEAGVFVPRSFDELGEIIQSVYED 317
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 454 bits (1169), Expect = e-155
Identities = 88/339 (25%), Positives = 143/339 (42%), Gaps = 34/339 (10%)
Query: 21 CGQSRSFTTAPPPAPAVFVDKNTRVICQGITGKN--GTFHTEQAIEY-GTKMVGGVTPKK 77
S + ++T+ I G+ + G + + V P
Sbjct: 475 PQDSVPSPRSLQGKSTTLFSRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFT 534
Query: 78 G--------GTEHLGLPVFNTVAEA-KAETKANASAIYVPPPFAAAAILEAME-AELDLV 127
G G + + +PVF +A+A + + + + A + +E M A++ +
Sbjct: 535 GDHKQKFYWGHKEILIPVFKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTI 594
Query: 128 VCITEGIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKPGECKIG--------IMPGYIHK 179
I EGIP+ ++ + Q ++GP G IKPG KIG I+ +++
Sbjct: 595 AIIAEGIPEALTRKLIKKAD-QKGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYR 653
Query: 180 PGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGGDPFNGTNFVDCVTKFIADPQTEGI 239
PG + VSRSG ++ E + G V IGGD + G+ F+D V ++ P + I
Sbjct: 654 PGSVAYVSRSGGMSNELNNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMI 713
Query: 240 ILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLTA---PPGRRMGHAGVDVYTIFGSAI 296
+++GEIGGT E IKE KPIV + G A + GHAG A
Sbjct: 714 VVLGEIGGTEEYKICRGIKEGRLTKPIVCWCIGTCATMFSSEVQFGHAG---------AC 764
Query: 297 VSGGKGTAQDKIKTLREAGVTVVESPAKIGAAMLEVFKQ 335
+ TA K + L+EAGV V S ++G + V++
Sbjct: 765 ANQASETAVAKNQALKEAGVFVPRSFDELGEIIQSVYED 803
>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU
genomics, protein structure initiative; 2.07A
{Escherichia coli}
Length = 480
Score = 325 bits (836), Expect = e-109
Identities = 50/270 (18%), Positives = 98/270 (36%), Gaps = 24/270 (8%)
Query: 61 QAIEYGTKMVGGVTPKKGGTEHL-GLPVFNTVAEAKAETKANASAIYVPPPFAAAAILEA 119
Q +E K + G ++ L + +++ + AN + I V +AA +A
Sbjct: 2 QQLEEALK---QLAQGSGSSQALTQVRRWDSACQK--LPDANLALISVAGEYAAELANQA 56
Query: 120 MEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKPGECKIGIMPGYIHK 179
++ L+ V+ ++ + D +++K + ++GP+C + G + +
Sbjct: 57 LDRNLN-VMMFSDNVTLEDEIQLKTRAR-EKGLLVMGPDCGTSMIAG---TPLAFANVMP 111
Query: 180 PGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGG----DPFNGTNFVDCVTKFIADPQ 235
G IG++ SGT E Q G G + +G+GG G + + + AD +
Sbjct: 112 EGNIGVIGASGTGIQELCSQIALAGEGITHAIGLGGRDLSREVGGISALTALEMLSADEK 171
Query: 236 TEGIILIGEIGGTAEEDAAALIKESGTEKPIVAFIAGLTAPPGRRMGHAGVDVYTIFGSA 295
+E + + + A ++ KP VA G T R F S+
Sbjct: 172 SEVLAFVSKPPAEAVRLKIVNAMKATG-KPTVALFLGYTPAVARDENV-------WFASS 223
Query: 296 IVSGG-KGTAQDKIKTLREAGVTVVESPAK 324
+ ++ R A V
Sbjct: 224 LDEAARLACLLSRVTARRNAIAPVSSGFIC 253
>2csu_A 457AA long hypothetical protein; structural genomics, PH0766, riken
ST genomics/proteomics initiative, RSGI, NPPSFA; 2.20A
{Pyrococcus horikoshii} SCOP: c.2.1.8 c.23.4.1 c.23.4.1
Length = 457
Score = 61.9 bits (151), Expect = 7e-11
Identities = 57/269 (21%), Positives = 103/269 (38%), Gaps = 55/269 (20%)
Query: 73 VTPKKGGTEHLGLPVFNTVAEAKAETKANASAIYVPPPFAAAAILEAMEAELDLVVCIT- 131
V K E G+ + +V + E + + I VP F +++ E + VV IT
Sbjct: 42 VNIK--EEEVQGVKAYKSVKDIPDE--IDLAIIVVPKRFVKDTLIQCGEKGVKGVVIITA 97
Query: 132 -------EGIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKPGECKIGIMPGYIH--KPGR 182
EG + + A + R++GPNC G++ + + +I K G
Sbjct: 98 GFGETGEEGKREEKELVEIAH---KYGMRIIGPNCVGIMNTH---VDLNATFITVAKKGN 151
Query: 183 IGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGGDPFNGT--NFVDCVTKFIADPQTEGII 240
+ +S+SG L V++T +G S + +G N +F + + + + I
Sbjct: 152 VAFISQSGALGAGIVYKTIKEDIGFSKFISVG----NMADVDFAELMEYLADTEEDKAIA 207
Query: 241 LIGE-IGGTAEEDAAALI---KESGTEKPIVAFIAGLTAPPGRR--MGHAG--VDVYTIF 292
L E + + + K +KPI+A AG + G R H G + I+
Sbjct: 208 LYIEGVR-----NGKKFMEVAKRVTKKKPIIALKAGKSE-SGARAASSHTGSLAGSWKIY 261
Query: 293 GSAIVSGGKGTAQDKIKTLREAGVTVVES 321
+A +++GV V +
Sbjct: 262 EAA---------------FKQSGVLVANT 275
Score = 36.1 bits (84), Expect = 0.016
Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 9/83 (10%)
Query: 223 FVDCVTKFIADPQTEGIILI----GEIGGTAEEDAAALI---KESGTEKPIVA-FIAGLT 274
+ + DP + +I I G T E A +I KE EKP++A F+AG
Sbjct: 356 YYRTAKLLLQDPNVDMLIAICVVPTFAGMTLTEHAEGIIRAVKEVNNEKPVLAMFMAGYV 415
Query: 275 APPGRRM-GHAGVDVYTIFGSAI 296
+ + + G+ Y
Sbjct: 416 SEKAKELLEKNGIPTYERPEDVA 438
>2duw_A Putative COA-binding protein; ligand binding protein; NMR
{Klebsiella pneumoniae}
Length = 145
Score = 36.2 bits (84), Expect = 0.005
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 7/93 (7%)
Query: 73 VTPKKGGTEHLGLPVFNTVAEAKAETKANASAIYVPPPFAAAAILEAMEAELDLVVCITE 132
V+PK G LG + T+A+ + ++ A EA+ + +
Sbjct: 46 VSPKVAGKTLLGQQGYATLADVPEKVDM--VDVFRNSEAAWGVAQEAIAIGAKTLW-LQL 102
Query: 133 GIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKP 165
G+ A L ++ +V CP + P
Sbjct: 103 GVINEQA----AVLAREAGLSVVMDRCPAIELP 131
>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 = 37.3 bits (86), Expect = 0.008
Identities = 35/227 (15%), Positives = 67/227 (29%), Gaps = 103/227 (45%)
Query: 2 ARQVSSRVV----RSLY--------MSSEICCGQSR------------SF--TTAPPPAP 35
A+ + VV +SLY + QSR F +P
Sbjct: 374 AKNL---VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP---- 426
Query: 36 AVFVDKNTRVICQGITGKNGTFHT---EQAIEYGTK--MVGGVTPKKGGTEHLGLPVFNT 90
FH+ A + K + V+ + + +PV++T
Sbjct: 427 ---------------------FHSHLLVPASDLINKDLVKNNVSFNA---KDIQIPVYDT 462
Query: 91 VAEAKAETKANASAIYVPPPFAAAAILEAMEAEL--DLVVCITEGIPQHDMVRVKAALNN 148
++ L + + +V CI V+ +
Sbjct: 463 ------FDGSD---------------LRVLSGSISERIVDCII-----RLPVKWETTTQF 496
Query: 149 QSKTRLV--GPNCPGVIKPGECKIGIMPGYIHKPGR-IGIVSRSGTL 192
++ T ++ G PG G +G++ K G + ++ +GTL
Sbjct: 497 KA-THILDFG---PG----GASGLGVLTHRN-KDGTGVRVIV-AGTL 533
Score = 36.2 bits (83), Expect = 0.015
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 22/77 (28%)
Query: 253 AAALIKESGTEKP-----IVAFIAGLTA---PPGRRMGHA--------GVDVYTIFGSAI 296
AA L++E+ T I +I P ++ A + IFG
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG--- 161
Query: 297 VSGGKGTAQDKIKTLRE 313
G+G D + LR+
Sbjct: 162 ---GQGNTDDYFEELRD 175
Score = 36.2 bits (83), Expect = 0.016
Identities = 45/358 (12%), Positives = 99/358 (27%), Gaps = 118/358 (32%)
Query: 1 MARQV--SSRVVRSLYMSSEICCGQSRSFTTAPPPAPAVFVDKNTRVICQGITGKNGTFH 58
M + +S+ + ++ ++ + F+ V N + G+ G
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD------IVINNPVNLTIHFGGEKGKRI 1684
Query: 59 TE--QAIEYGTKMVGGVTPKK---GGTEHLGLPVFNTVAEAKAETKANAS-AIYVPPPFA 112
E A+ + T + G + +K EH F + + T A+ +
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT-QFTQPALTL----M 1739
Query: 113 AAAILEAMEAELDLVVCITEGIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKPGECKIGI 172
A E ++++ G+I G
Sbjct: 1740 EKAAFEDLKSK-------------------------------------GLIPADATFAG- 1761
Query: 173 MPGYIHKPGRIG----IVSRSGTLTYEAVFQTTAVGL----GQSTCVGIGGDPFNGTNFV 224
H +G + S + ++ E+ V + G + V + D +N+
Sbjct: 1762 -----HS---LGEYAALASLADVMSIES-----LVEVVFYRGMTMQVAVPRDELGRSNY- 1807
Query: 225 DCVTKFIADPQTEGIILI--GEIG-GTAEEDAAALIKESGTEKPIVAFIAGLTAPPGRRM 281
G+I I G + ++E +++ G + I
Sbjct: 1808 -------------GMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE----- 1849
Query: 282 GHAGVDVYTIFGSAIVSGGKGTAQDK----IKTLREAGVTVVESPAKIGAAMLEVFKQ 335
V+ G A D + ++ + ++E + LE +
Sbjct: 1850 -----------NQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL---SLEEVEG 1893
>1y81_A Conserved hypothetical protein; hyperthermophIle, structural
genomics, PSI, protein structure initiative; HET: COA;
1.70A {Pyrococcus furiosus} SCOP: c.2.1.8
Length = 138
Score = 31.8 bits (73), Expect = 0.11
Identities = 17/94 (18%), Positives = 26/94 (27%), Gaps = 11/94 (11%)
Query: 73 VTPKKGGTEHLGLPVFNTVAEAKAETK-ANASAIYVPPPFAAAAILEAMEAELDLVVCIT 131
V P E GL + +V E + VPP EA+EA +
Sbjct: 47 VNPN--YDEIEGLKCYRSVRELPKDVDVIV---FVVPPKVGLQVAKEAVEAGFKKLWFQP 101
Query: 132 EGIPQHDMVRVKAALNNQSKTRLVGPNCPGVIKP 165
G ++ ++ C V
Sbjct: 102 -GAESEEI----RRFLEKAGVEYSFGRCIMVETS 130
>2vt3_A REX, redox-sensing transcriptional repressor REX; transcriptional
regulation, redox poise; HET: ATP; 2.0A {Bacillus
subtilis} PDB: 2vt2_A*
Length = 215
Score = 31.0 bits (70), Expect = 0.44
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 5/88 (5%)
Query: 39 VDKNTRVICQGITGKNGT--FHTEQAIEYGTKMVGG--VTPKKGGTEHLGLPVFNTVAEA 94
D+ T VI G+ G GT H TK+ + K GTE G+PV+N
Sbjct: 82 QDEMTDVILIGV-GNLGTAFLHYNFTKNNNTKISMAFDINESKIGTEVGGVPVYNLDDLE 140
Query: 95 KAETKANASAIYVPPPFAAAAILEAMEA 122
+ + + + VP A + +
Sbjct: 141 QHVKDESVAILTVPAVAAQSITDRLVAL 168
>2dy0_A APRT, adenine phosphoribosyltransferase; structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.25A {Escherichia coli K12}
Length = 190
Score = 30.3 bits (69), Expect = 0.55
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 246 GGTAEEDAAALIKESGTEKPIVAFIAGLTAPPGR-RMGHAGVDVYTI 291
GGT E LI+ G E AFI L G R+ G+ Y++
Sbjct: 139 GGTIEA-TVKLIRRLGGEVADAAFIINLFDLGGEQRLEKQGITSYSL 184
>2d59_A Hypothetical protein PH1109; COA binding, structural genomics;
1.65A {Pyrococcus horikoshii} SCOP: c.2.1.8 PDB: 2d5a_A*
2e6u_X* 3qa9_A 3q9n_A* 3q9u_A*
Length = 144
Score = 29.2 bits (66), Expect = 0.93
Identities = 14/90 (15%), Positives = 30/90 (33%), Gaps = 9/90 (10%)
Query: 73 VTPKKGGTEHLGLPVFNTVAEAKAETKANASAIYVPPPFAAAAILEAMEAELDLVVCITE 132
V PK E LG + +V + + ++V P + +A++ VV
Sbjct: 55 VNPK--YEEVLGRKCYPSVLDIPDK--IEVVDLFVKPKLTMEYVEQAIKKGAK-VVWFQY 109
Query: 133 GIPQHDMVRVKAALNNQSKTRLVGPNCPGV 162
+ + +++ +V C
Sbjct: 110 NTYNREA----SKKADEAGLIIVANRCMMR 135
>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 = 29.1 bits (64), Expect = 1.1
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 93 EAKAETKANAS-AIYVPPPFAAAAILEAME 121
E +A K AS +Y A AI ME
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
Score = 28.4 bits (62), Expect = 1.9
Identities = 6/38 (15%), Positives = 13/38 (34%), Gaps = 17/38 (44%)
Query: 3 RQVSSRVVRSLYMSSEICCGQSRSFTTAPPPAPAVFVD 40
+++ + + LY A APA+ +
Sbjct: 23 KKLQASL--KLY---------------ADDSAPALAIK 43
>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 = 30.1 bits (68), Expect = 1.2
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 4/29 (13%)
Query: 65 YGTKMVGGVTPKKGGTEHLGLPVFNTVAE 93
+GT M+ VTPK EHLGLP + V
Sbjct: 468 FGTAMLCYVTPK----EHLGLPDRDDVKT 492
>1iuk_A Hypothetical protein TT1466; structural genomics, riken structural
genomics/proteomics initiative, RSGI, unknown function;
1.70A {Thermus thermophilus} SCOP: c.2.1.8 PDB: 1iul_A
Length = 140
Score = 28.4 bits (63), Expect = 2.1
Identities = 19/100 (19%), Positives = 36/100 (36%), Gaps = 8/100 (8%)
Query: 63 IEYGTKMVGGVTPKKGGTEHLGLPVFNTVAEAKAETKANASAIYVPPPFAAAAILEAMEA 122
E G +++ V P+ G E G ++ + K + ++ PP + E +
Sbjct: 37 REQGYRVLP-VNPRFQGEELFGEEAVASLLDLKE--PVDILDVFRPPSALMDHLPEVLAL 93
Query: 123 ELDLVVCITEGIPQHDMVRVKAALNNQSKTRLVGPNCPGV 162
LV + GI +H ++ +V C V
Sbjct: 94 RPGLVW-LQSGI-RHPEFEKAL---KEAGIPVVADRCLMV 128
>3bf0_A Protease 4; bacterial, hydrolase, inner membrane, membrane,
transmembrane; 2.55A {Escherichia coli} PDB: 3bez_A
Length = 593
Score = 28.4 bits (63), Expect = 4.2
Identities = 17/101 (16%), Positives = 33/101 (32%), Gaps = 13/101 (12%)
Query: 179 KPGRIGIVSRSGTLTYEAVFQTTAVGLGQSTCVGIGGDPFNGTNFVDCVT---KFIADPQ 235
++ SG + + + +G D + D V + D
Sbjct: 29 ASRGALLLDISGVIV-DKPDSSQRFSKLSRQLLGASSDRLQENSLFDIVNTIRQAKDDRN 87
Query: 236 TEGIIL-IGEIGG----TAEEDAAAL--IKESGTEKPIVAF 269
GI++ + G + + AL ++SG KP+ A
Sbjct: 88 ITGIVMDLKNFAGGDQPSMQYIGKALKEFRDSG--KPVYAV 126
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 28.2 bits (63), Expect = 4.3
Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 268 AFIAGLTAPPGRRMGHAGVDVYTIFG 293
AF G+TA P R D Y FG
Sbjct: 332 AFQIGMTATPLR---EDNRDTYRYFG 354
>3c8n_A Probable F420-dependent glucose-6-phosphate dehyd FGD1; TIM barrel,
non-prolyl CIS-peptide, oxidoreductase; 1.90A
{Mycobacterium tuberculosis} PDB: 3b4y_A
Length = 356
Score = 27.8 bits (62), Expect = 5.4
Identities = 9/71 (12%), Positives = 17/71 (23%)
Query: 247 GTAEEDAAALIKESGTEKPIVAFIAGLTAPPGRRMGHAGVDVYTIFGSAIVSGGKGTAQD 306
E A + + P + + I IV+ A +
Sbjct: 256 DPDPELAMNNTRFWAPLSLTAEQKHSIDDPIEMEKAADALPIEQIAKRWIVASDPDEAVE 315
Query: 307 KIKTLREAGVT 317
K+ G+
Sbjct: 316 KVGQYVTWGLN 326
>4ehi_A Bifunctional purine biosynthesis protein PURH; structural genomics,
center for structural genomics of infec diseases, csgid;
HET: MSE BTB; 2.28A {Campylobacter jejuni subsp}
Length = 534
Score = 27.5 bits (62), Expect = 6.6
Identities = 16/55 (29%), Positives = 21/55 (38%), Gaps = 21/55 (38%)
Query: 266 IVAFIAGLTAPPGRRMGHAGVDVYTIFGSAIVSGGKGTAQDKIKTLREAGVTVVE 320
IV F L G + I+S G GT K L+E G+ V+E
Sbjct: 37 IVEFGKELEN--------LGFE--------ILSTG-GTF----KLLKENGIKVIE 70
>3zzm_A Bifunctional purine biosynthesis protein PURH; transferase,
hydrolase; HET: JLN; 2.20A {Mycobacterium tuberculosis}
PDB: 4a1o_A*
Length = 523
Score = 27.4 bits (62), Expect = 6.7
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 292 FGSAIVSGGKGTAQDKIKTLREAGVTVVE 320
G I+S G TA KT+ + G+ V
Sbjct: 33 AGVEIISTG-STA----KTIADTGIPVTP 56
>1id1_A Putative potassium channel protein; RCK domain, E.coli potassium
channel, BK channel, rossmann fold, membrane protein;
2.40A {Escherichia coli} SCOP: c.2.1.9
Length = 153
Score = 26.6 bits (59), Expect = 8.2
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 308 IKTLREAGVTVVESPAKIGAAML 330
+ ++ ++ SP G+ +L
Sbjct: 111 LNKIKMVHPDIILSPQLFGSEIL 133
>1zcz_A Bifunctional purine biosynthesis protein PURH; TM1249; HET: PG4;
1.88A {Thermotoga maritima} SCOP: c.24.1.3 c.97.1.4
Length = 464
Score = 27.1 bits (61), Expect = 9.6
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 5/29 (17%)
Query: 292 FGSAIVSGGKGTAQDKIKTLREAGVTVVE 320
G I + GTA K L+ G+ +
Sbjct: 36 KGWEIWASS-GTA----KFLKSNGIEAND 59
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
0.317 0.135 0.393
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,350,193
Number of extensions: 356501
Number of successful extensions: 1187
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1136
Number of HSP's successfully gapped: 48
Length of query: 340
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 246
Effective length of database: 4,077,219
Effective search space: 1002995874
Effective search space used: 1002995874
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: 58 (25.9 bits)