RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3769
(974 letters)
>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 = 472 bits (1217), Expect = e-159
Identities = 138/325 (42%), Positives = 207/325 (63%), Gaps = 5/325 (1%)
Query: 1 MNIYEYQGKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGI 60
MN++EYQ K++ ++ + P G C EA +AA KIG WV+K Q+HAGGRGK GG+
Sbjct: 1 MNLHEYQAKQLFARYGLPAPVGYACTTPREAEEAASKIGAGPWVVKCQVHAGGRGKAGGV 60
Query: 61 KLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISFMTDRVQQN 120
K+ S E + + + LG +L+T QT+ G+ V +L+E DI KELY+ + DR +
Sbjct: 61 KVVNSKEDIRAFAENWLGKRLVTYQTDANGQPVNQILVEAATDIAKELYLGAVVDRSSRR 120
Query: 121 IIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNISKKISIPKNSLINFYEE 180
++FM S +GG++IE +++ +P L++K +DPL G ++ K+ + + F +
Sbjct: 121 VVFMASTEGGVEIEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKLGLEGKLVQQFTKI 180
Query: 181 IQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFRHPEIISYQYAHKKYI 240
+ + E D L+EINPLVI + +I LD K D NALFR P++ +
Sbjct: 181 FMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALFRQPDLREMR-----DQ 235
Query: 241 NKIDLMEIEASKFDLTYIPLNGNIGCLVNGAGLAMATMDTIKLFGGEPANFLDIGGGATI 300
++ D E +A++++L Y+ L+GNIGC+VNGAGLAM TMD +KL GGEPANFLD+GGGAT
Sbjct: 236 SQEDPREAQAAQWELNYVALDGNIGCMVNGAGLAMGTMDIVKLHGGEPANFLDVGGGATK 295
Query: 301 KTITEAFKIMMQQNNLKTILVNIFG 325
+ +TEAFKI++ + +K +LVNIFG
Sbjct: 296 ERVTEAFKIILSDDKVKAVLVNIFG 320
>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 = 462 bits (1191), Expect = e-155
Identities = 122/332 (36%), Positives = 196/332 (59%), Gaps = 12/332 (3%)
Query: 1 MNIYEYQGKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGK---- 56
MN+ EYQ K+++ V + + + +EA++AAK++ V+KAQI AGGRGK
Sbjct: 1 MNLQEYQSKKLMSDNGVKVQRFFVADTANEALEAAKRLNAKEIVLKAQILAGGRGKGVFS 60
Query: 57 ---CGGIKLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISFM 113
GG+ L + E V + K+++G L T QT +EG V V++ E +DI +E Y++ +
Sbjct: 61 SGLKGGVHLTKDPEVVGQLAKQMIGYNLATKQTPKEGVKVNKVMVAEALDISRETYLAIL 120
Query: 114 TDRVQQNIIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNISKKISIPKNS 173
DR + +GS +GG+DIE ++ ++PEL++K ID + G+ + +++ +
Sbjct: 121 MDRSCNGPVLVGSPQGGVDIEEVAASNPELIFKEQIDIIEGIKDSQAQRMAENLGFLGPL 180
Query: 174 LINFYEEIQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFRHPEIISYQ 233
++I+ +Y + + D+ +E+NP + +++ D K NFD NA FR +I +
Sbjct: 181 QNQAADQIKKLYNLFLKIDATQVEVNPFGETPEGQVVCFDAKINFDDNAEFRQKDIFAMD 240
Query: 234 YAHKKYINKIDLMEIEASKFDLTYIPLNGNIGCLVNGAGLAMATMDTIKLFGGEPANFLD 293
++ + +E EA+K+DL YI L+GNI C VNGAGLAMAT D I L GG+PANFLD
Sbjct: 241 -----DKSENEPIENEAAKYDLKYIGLDGNIACFVNGAGLAMATCDIIFLNGGKPANFLD 295
Query: 294 IGGGATIKTITEAFKIMMQQNNLKTILVNIFG 325
+GGG + +AFK++ ++ ILVNIFG
Sbjct: 296 LGGGVKESQVYQAFKLLTADPKVEAILVNIFG 327
>3ufx_B Succinyl-COA synthetase beta subunit; ATP-grAsp fold, ligase; HET:
GDP; 2.35A {Thermus aquaticus}
Length = 397
Score = 444 bits (1144), Expect = e-148
Identities = 123/325 (37%), Positives = 191/325 (58%), Gaps = 14/325 (4%)
Query: 1 MNIYEYQGKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGI 60
MN++EYQ KEIL ++ V +P G + +EA + A++ G VIKAQ+H GGRGK GG+
Sbjct: 1 MNLHEYQAKEILARYGVPVPPGKVAYTPEEAKRIAEEFGKR-VVIKAQVHVGGRGKAGGV 59
Query: 61 KLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISFMTDRVQQN 120
KLA + ++ + + ILGM + +G V VL+ E +DI KE Y + DR ++
Sbjct: 60 KLADTPQEAYEKAQAILGMNI-------KGLTVKKVLVAEAVDIAKEYYAGLILDRAKKR 112
Query: 121 IIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNISKKISIPKNSLINFYEE 180
++ M S +GG+DIE ++ PE ++K IDP G + K+ + N L +
Sbjct: 113 VVLMLSKEGGVDIEEVAAERPEAIHKFWIDPHKGFRPFEAREMVKRAGLEGN-LNKLAQV 171
Query: 181 IQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFRHPEIISYQYAHKKYI 240
+ +Y++Y D+ + EINPLV+ + I++ D K D NALFRHP++ + +
Sbjct: 172 LVALYRAYEGVDASIAEINPLVVTTDGGIVAADAKIVLDDNALFRHPDLAEL-----REV 226
Query: 241 NKIDLMEIEASKFDLTYIPLNGNIGCLVNGAGLAMATMDTIKLFGGEPANFLDIGGGATI 300
+E+EAS + Y+ L+GNIG + NGAGL M T+D + GG+PANFLDIGGGA
Sbjct: 227 EAEHPLEVEASNYGFAYVKLDGNIGIIGNGAGLVMYTLDLVNRVGGKPANFLDIGGGAKA 286
Query: 301 KTITEAFKIMMQQNNLKTILVNIFG 325
+ A K++++ ++K + +NIFG
Sbjct: 287 DVVYNALKVVLKDPDVKGVFINIFG 311
>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 = 428 bits (1102), Expect = e-143
Identities = 134/244 (54%), Positives = 174/244 (71%), Gaps = 5/244 (2%)
Query: 325 GITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVI 384
G TG G FH+ + YG V GV P K G +P+F+TV+ A TGAT SVI
Sbjct: 14 GFTGSQGTFHSEQAIAYGTK---MVGGVTPGKGGTTHLGLPVFNTVREAVAATGATASVI 70
Query: 385 YVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLLLGPNCPGLIV 444
YVPA F +I EAI++ ++L+I ITEGIP DML +K K+ + + ++GPN PG+I
Sbjct: 71 YVPAPFCKDSILEAIDAGIKLIITITEGIPTLDMLTVKVKLDE--AGVRMIGPNTPGVIT 128
Query: 445 PEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPINGLKYI 504
P E KIGI PG+IHK G++G+VSRSGTLTYE V Q T+ GFGQS+ VGIGGDPI G +I
Sbjct: 129 PGECKIGIQPGHIHKPGKVGIVSRSGTLTYEAVKQTTDYGFGQSTCVGIGGDPIPGSNFI 188
Query: 505 DILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKKNMKKPVIGFIAGITAPPGKRMGHAG 564
DIL++F +D T+A++MIGEIGG E AA +IK+++ KPV+G+IAG+TAP GKRMGHAG
Sbjct: 189 DILEMFEKDPQTEAIVMIGEIGGSAEEEAAAYIKEHVTKPVVGYIAGVTAPKGKRMGHAG 248
Query: 565 ALIT 568
A+I
Sbjct: 249 AIIA 252
>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 = 426 bits (1098), Expect = e-143
Identities = 126/244 (51%), Positives = 165/244 (67%), Gaps = 5/244 (2%)
Query: 325 GITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVI 384
GITG+ G+FHT L YG VAGV P K G + +P++DTVK A S+I
Sbjct: 14 GITGREGQFHTKQMLTYGTK---IVAGVTPGKGGMEVLGVPVYDTVKEAVAHHEVDASII 70
Query: 385 YVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLLLGPNCPGLIV 444
+VPA A A EA + + L++ ITEGIP DM+ ++K + L+G NCPG+I
Sbjct: 71 FVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMVRAVEEIKA--LGSRLIGGNCPGIIS 128
Query: 445 PEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPINGLKYI 504
EE KIGIMPG++ K+GR+G++SRSGTLTYE L++ G G ++ VGIGGDP+ G +
Sbjct: 129 AEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGDPVIGTTFK 188
Query: 505 DILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKKNMKKPVIGFIAGITAPPGKRMGHAG 564
D+L LFNED T+AV++IGEIGG DE AA W+K +MKKPV+GFI G +AP GKRMGHAG
Sbjct: 189 DLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMKKPVVGFIGGRSAPKGKRMGHAG 248
Query: 565 ALIT 568
A+I
Sbjct: 249 AIIM 252
>2yv1_A Succinyl-COA ligase [ADP-forming] subunit alpha; COA-binding
domain, structural genomics, NPPSFA; 1.70A
{Methanocaldococcus jannaschii}
Length = 294
Score = 423 bits (1089), Expect = e-141
Identities = 126/244 (51%), Positives = 166/244 (68%), Gaps = 6/244 (2%)
Query: 325 GITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVI 384
GITG+ G FHT L G V GV P K GQ +P+FDTVK A ET A SVI
Sbjct: 20 GITGRQGSFHTKKMLECGT---KIVGGVTPGKGGQNVHGVPVFDTVKEAVKETDANASVI 76
Query: 385 YVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLLLGPNCPGLIV 444
+VPA FA A++EAI++ +EL++ ITE IPV D + N + ++GPN PG+
Sbjct: 77 FVPAPFAKDAVFEAIDAGIELIVVITEHIPVHDTMEFVNYAED--VGVKIIGPNTPGIAS 134
Query: 445 PEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPINGLKYI 504
P+ K+GI+P + K+G +G+VSRSGTLTYE+ Q+ + GFG S+ VGIGGDPI GL+Y
Sbjct: 135 PKVGKLGIIPMEVLKEGSVGMVSRSGTLTYEIAHQIKKAGFGVSTCVGIGGDPIVGLRYK 194
Query: 505 DILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKKNMKKPVIGFIAGITAPPGKRMGHAG 564
++L LF +D T+A++MIGEIGG E AA +I + MKKPVIG+IAG +AP GKRMGHAG
Sbjct: 195 EVLDLFEKDDETEAIVMIGEIGGGAEEEAAKFI-EKMKKPVIGYIAGQSAPEGKRMGHAG 253
Query: 565 ALIT 568
A++
Sbjct: 254 AIVE 257
>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 = 423 bits (1089), Expect = e-141
Identities = 144/264 (54%), Positives = 185/264 (70%), Gaps = 14/264 (5%)
Query: 314 NNLKTILVN-----IF-GITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIF 367
+ K + V+ I G TGK G FH+ L YG V G P K G+ +P+F
Sbjct: 4 ASRKHLYVDKNTKVICQGFTGKQGTFHSQQALEYGTN---LVGGTTPGKGGKTHLGLPVF 60
Query: 368 DTVKNAKNETGATVSVIYVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKK 427
+TVK AK +TGAT SVIYVP FA +AI EAI++E+ LV+CITEGIP +DM+ +K+++ +
Sbjct: 61 NTVKEAKEQTGATASVIYVPPPFAAAAINEAIDAEVPLVVCITEGIPQQDMVRVKHRLLR 120
Query: 428 NNSKTLLLGPNCPGLIVPEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQ 487
KT L+GPNCPG+I P E KIGIMPG+IHKKGRIG+VSRSGTLTYE V Q T++G GQ
Sbjct: 121 Q-GKTRLIGPNCPGVINPGECKIGIMPGHIHKKGRIGIVSRSGTLTYEAVHQTTQVGLGQ 179
Query: 488 SSAVGIGGDPINGLKYIDILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKKN----MKK 543
S VGIGGDP NG + D L++F D T+ +I+IGEIGG E AA ++K++ K
Sbjct: 180 SLCVGIGGDPFNGTDFTDCLEIFLNDPATEGIILIGEIGGNAEENAAEFLKQHNSGPKSK 239
Query: 544 PVIGFIAGITAPPGKRMGHAGALI 567
PV+ FIAG+TAPPG+RMGHAGA+I
Sbjct: 240 PVVSFIAGLTAPPGRRMGHAGAII 263
>2yv2_A Succinyl-COA synthetase alpha chain; COA-binding domain, ligase,
structural genomics, NPPSFA; 2.20A {Aeropyrum pernix}
Length = 297
Score = 420 bits (1082), Expect = e-140
Identities = 126/246 (51%), Positives = 163/246 (66%), Gaps = 7/246 (2%)
Query: 325 GITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNE-TGATVSV 383
GITG+ G FH L YG VAGV P K G + +P++D+VK A E S+
Sbjct: 20 GITGREGSFHAKAMLEYGTK---VVAGVTPGKGGSEVHGVPVYDSVKEALAEHPEINTSI 76
Query: 384 IYVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLLLGPNCPGLI 443
++VPA FA A++EA+++ + LV+ ITEGIPV D + N ++ ++GPNCPG I
Sbjct: 77 VFVPAPFAPDAVYEAVDAGIRLVVVITEGIPVHDTMRFVNYARQ--KGATIIGPNCPGAI 134
Query: 444 VPEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPINGLKY 503
P + K+GIMPG+I K+G + VVSRSGTLTYE+ LT G GQS+ +GIGGDPI GL +
Sbjct: 135 TPGQAKVGIMPGHIFKEGGVAVVSRSGTLTYEISYMLTRQGIGQSTVIGIGGDPIVGLSF 194
Query: 504 IDILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKK-NMKKPVIGFIAGITAPPGKRMGH 562
+ LKLF ED T+A+++IGEIGG E AA IKK KPVI +IAG TAPP KRMGH
Sbjct: 195 TEALKLFQEDPQTEALVLIGEIGGDMEERAAEMIKKGEFTKPVIAYIAGRTAPPEKRMGH 254
Query: 563 AGALIT 568
AGA+I
Sbjct: 255 AGAIIM 260
>3mwd_A ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_A*
Length = 425
Score = 363 bits (933), Expect = e-116
Identities = 73/348 (20%), Positives = 131/348 (37%), Gaps = 36/348 (10%)
Query: 3 IYEYQGKEILRKFNVTIPKGIL---------CMNVDEAIKAAKKIGGNSWVIKAQIHAGG 53
I E GKE+L KF T + ++ + + V+K
Sbjct: 6 ISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPDQLIKR 65
Query: 54 RGKCGGIKLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEY--IDIKKELYIS 111
RGK G + + +L+ V+ + K LG + + + LIE + +E Y+
Sbjct: 66 RGKLGLVGVNLTLDGVKSWLKPRLGQEA---TVGKATGFLKNFLIEPFVPHSQAEEFYVC 122
Query: 112 FMTDRVQQNIIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNISKKISIPK 171
R ++F ++GG+D+ + + +LL +D + + K
Sbjct: 123 IYATREGDYVLF--HHEGGVDVGDVDAKAQKLLVG--VDEKLNPEDIKKHLLVHAPEDKK 178
Query: 172 NSLINFYEEIQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFRHPEIIS 231
L +F I ++ Y + LEINPLV+ K+ + LD+ D A +
Sbjct: 179 EILASF---ISGLFNFYEDLYFTYLEINPLVVT-KDGVYVLDLAAKVDATADYICKVKWG 234
Query: 232 Y--------QYAHKKYINKIDLMEIEASKFDLTYIPLNGNIGCLVNGAGLAMATMDTIKL 283
+ A+ + DL + LT + G I +V G G ++ DTI
Sbjct: 235 DIEFPPPFGREAYPEEAYIADLDAKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTICD 294
Query: 284 FGG--EPANFLDIGGGATIKTITEAFKI----MMQQNNLKTILVNIFG 325
GG E AN+ + G + + + K M ++ + ++ I G
Sbjct: 295 LGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGG 342
>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_B*
Length = 334
Score = 349 bits (898), Expect = e-112
Identities = 64/281 (22%), Positives = 114/281 (40%), Gaps = 34/281 (12%)
Query: 318 TILVN------IFGITGKT--GRFHTNLCLNYGNGKKAFVAGVNPKK--------NGQKF 361
T L + ++G+ + G + + + + A V P G K
Sbjct: 4 TTLFSRHTKAIVWGMQTRAVQGMLDFDYVCSRD--EPSVAAMVYPFTGDHKQKFYWGHKE 61
Query: 362 EEIPIFDTVKNA-KNETGATVSVIYVPAIFATSAIWEAIE-SELELVICITEGIPVRDML 419
IP+F + +A + V + + A + E + +++ + I EGIP
Sbjct: 62 ILIPVFKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTR 121
Query: 420 ILKNKMKKNNSKTLLLGPNCPGLIVPEEIKIG--------IMPGNIHKKGRIGVVSRSGT 471
L K + ++GP G I P KIG I+ +++ G + VSRSG
Sbjct: 122 KLIKKADQ--KGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYRPGSVAYVSRSGG 179
Query: 472 LTYEVVCQLTELGFGQSSAVGIGGDPINGLKYIDILKLFNEDQNTDAVIMIGEIGGLDEI 531
++ E+ ++ G V IGGD G ++D + + + ++++GEIGG +E
Sbjct: 180 MSNELNNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMIVVLGEIGGTEEY 239
Query: 532 YAANWIKK-NMKKPVIGFIAGITA---PPGKRMGHAGALIT 568
IK+ + KP++ + G A + GHAGA
Sbjct: 240 KICRGIKEGRLTKPIVCWCIGTCATMFSSEVQFGHAGACAN 280
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 344 bits (884), Expect = e-104
Identities = 62/276 (22%), Positives = 112/276 (40%), Gaps = 28/276 (10%)
Query: 317 KTILVNIFGITGKT--GRFHTNLCLNYGNGKKAFVAGVNPKK--------NGQKFEEIPI 366
+ ++G+ + G + + + + A V P G K IP+
Sbjct: 495 RHTKAIVWGMQTRAVQGMLDFDYVCSRD--EPSVAAMVYPFTGDHKQKFYWGHKEILIPV 552
Query: 367 FDTVKNA-KNETGATVSVIYVPAIFATSAIWEAIE-SELELVICITEGIPVRDMLILKNK 424
F + +A + V + + A + E + +++ + I EGIP L K
Sbjct: 553 FKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTRKLIKK 612
Query: 425 MKKNNSKTLLLGPNCPGLIVPEEIKIG--------IMPGNIHKKGRIGVVSRSGTLTYEV 476
+ ++GP G I P KIG I+ +++ G + VSRSG ++ E+
Sbjct: 613 ADQ--KGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYRPGSVAYVSRSGGMSNEL 670
Query: 477 VCQLTELGFGQSSAVGIGGDPINGLKYIDILKLFNEDQNTDAVIMIGEIGGLDEIYAANW 536
++ G V IGGD G ++D + + + ++++GEIGG +E
Sbjct: 671 NNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMIVVLGEIGGTEEYKICRG 730
Query: 537 IKKN-MKKPVIGFIAGITA---PPGKRMGHAGALIT 568
IK+ + KP++ + G A + GHAGA
Sbjct: 731 IKEGRLTKPIVCWCIGTCATMFSSEVQFGHAGACAN 766
Score = 153 bits (389), Expect = 2e-38
Identities = 76/350 (21%), Positives = 133/350 (38%), Gaps = 40/350 (11%)
Query: 3 IYEYQGKEILRKFNVTIPKG---ILCMNVDEAIKAAKKIGGNSW------VIKAQIHAGG 53
I E GKE+L KF T V A+ + + W V+K
Sbjct: 6 ISEQTGKELLYKFICTTSAIQNRFKYARVTPDTDWARLLQDHPWLLSQNLVVKPDQLIKR 65
Query: 54 RGKCGGIKLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYI--DIKKELYIS 111
RGK G + + +L+ V+ + K LG + + + LIE ++ +E Y+
Sbjct: 66 RGKLGLVGVNLTLDGVKSWLKPRLGQEA---TVGKATGFLKNFLIEPFVPHSQAEEFYVC 122
Query: 112 FMTDRVQQNIIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNISKKISIPK 171
R ++F ++GG+D+ + + +LL + L +I P+
Sbjct: 123 IYATREGDYVLF--HHEGGVDVGDVDAKAQKLL----VGVDEKLNPEDIKKHLLV-HAPE 175
Query: 172 NSLINFYEEIQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFR------ 225
+ I ++ Y + LEINPLV+ K+ + LD+ D A +
Sbjct: 176 DKKEILASFISGLFNFYEDLYFTYLEINPLVVT-KDGVYVLDLAAKVDATADYICKVKWG 234
Query: 226 ----HPEIISYQYAHKKYINKIDLMEIEASKFDLTYIPLNGNIGCLVNGAGLAMATMDTI 281
P Y + YI +D + LT + G I +V G G ++ DTI
Sbjct: 235 DIEFPPPFGREAYPEEAYIADLD--AKSGASLKLTLLNPKGRIWTMVAGGGASVVYSDTI 292
Query: 282 KLFGG--EPANFLDIGGGATIKTITE----AFKIMMQQNNLKTILVNIFG 325
GG E AN+ + G + + + +M ++ + ++ I G
Sbjct: 293 CDLGGVNELANYGEYSGAPSEQQTYDYAKTILSLMTREKHPDGKILIIGG 342
>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU
genomics, protein structure initiative; 2.07A
{Escherichia coli}
Length = 480
Score = 320 bits (821), Expect = 1e-99
Identities = 41/228 (17%), Positives = 92/228 (40%), Gaps = 15/228 (6%)
Query: 347 AFVAGVNPKKNGQKFEE-IPIFDTVKNAKNETGATVSVIYVPAIFATSAIWEAIESELEL 405
+ + + + +D+ A +++I V +A +A++ L
Sbjct: 6 EALKQLAQGSGSSQALTQVRRWDSACQK--LPDANLALISVAGEYAAELANQALDRNLN- 62
Query: 406 VICITEGIPVRDMLILKNKMKKNNSKTLLLGPNCPGLIVPEEIKIGIMPGNIHKKGRIGV 465
V+ ++ + + D + LK + ++ L++GP+C ++ + N+ +G IGV
Sbjct: 63 VMMFSDNVTLEDEIQLKTRARE--KGLLVMGPDCGTSMIA---GTPLAFANVMPEGNIGV 117
Query: 466 VSRSGTLTYEVVCQLTELGFGQSSAVGIGG----DPINGLKYIDILKLFNEDQNTDAVIM 521
+ SGT E+ Q+ G G + A+G+GG + G+ + L++ + D+ ++ +
Sbjct: 118 IGASGTGIQELCSQIALAGEGITHAIGLGGRDLSREVGGISALTALEMLSADEKSEVLAF 177
Query: 522 IGEIGGLDEIYAANWIKKNMKKPVIGFIAGITAPPGKRMG--HAGALI 567
+ + K KP + G T + A +L
Sbjct: 178 VSKPPAEAVRLKIVNAMKATGKPTVALFLGYTPAVARDENVWFASSLD 225
>3h9n_A Ribosome maturation factor RIMM; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.70A {Haemophilus
influenzae}
Length = 177
Score = 104 bits (261), Expect = 8e-26
Identities = 35/125 (28%), Positives = 62/125 (49%), Gaps = 3/125 (2%)
Query: 842 HLITIGVVLRAYGIFGWILIKLFLDDKNIFFYARKIWFFDPNSLKLFSIKILNKKNHGNY 901
H+ +G + YGI GW+ I + F + + + SI++ N + H +
Sbjct: 1 HIEVVGKLGSTYGIRGWLRIYSSTEQAESIFDYQPWFLKIKGEWQ--SIELENWRYHNHE 58
Query: 902 VLANLYGITDRNLATKLQGYYLKISINDFPKLLSSDTFYWFNLIDCIVENIHGKLLGTVT 961
++ L G+ DR A L + + ++ FP+L +YW +LI C V N+ G +GTVT
Sbjct: 59 IIVKLKGVDDREAAQILANVEIGVDLSVFPEL-EEGDYYWHDLIGCTVVNLEGYTMGTVT 117
Query: 962 EIIQN 966
E+++
Sbjct: 118 EMMET 122
>2f1l_A 16S rRNA processing protein; structural genomics, joint CENT
structural genomics, JCSG, protein structure initiative,
PS unknown function; HET: UNL; 2.46A {Pseudomonas
aeruginosa} SCOP: b.41.1.4 b.43.3.4
Length = 187
Score = 103 bits (260), Expect = 1e-25
Identities = 31/126 (24%), Positives = 56/126 (44%), Gaps = 3/126 (2%)
Query: 841 DHLITIGVVLRAYGIFGWILIKLFLDDKNIFFYARKIWFFDPNSLKLFSIKILNKKNHGN 900
D L+ IG ++ YGI G + + F D + R+ ++ +++ + HG
Sbjct: 18 DDLVVIGKIVSVYGIRGEVKVYSFTDPLDNLLDYRRWTLRRDG--EIRQAELVRGRLHGK 75
Query: 901 YVLANLYGITDRNLATKLQGYYLKISINDFPKLLSSDTFYWFNLIDCIVENIHGKLLGTV 960
+ A L G+ DR A GY + I ++ P L +YW L V + +LLG +
Sbjct: 76 VLAAKLKGLDDREEARTFTGYEICIPRSELPS-LEEGEYYWHQLEGLKVIDQGRQLLGVI 134
Query: 961 TEIIQN 966
+++
Sbjct: 135 DHLLET 140
>2qgg_A 16S rRNA-processing protein RIMM; X-RAY, NESG, ASR73, structural
genomics, PSI-2, protein structure initiative; 2.40A
{Acinetobacter calcoaceticus}
Length = 182
Score = 98.9 bits (247), Expect = 7e-24
Identities = 30/136 (22%), Positives = 56/136 (41%), Gaps = 7/136 (5%)
Query: 835 KTSLTVDHLITIGVVLRAYGIFGWILIKLFLDDKNIFFYARKIWFFDPNSLKLFSIKILN 894
T + I IG + AYG+ GW+ + + + F + + ++ +
Sbjct: 3 PTQNVPEDRIQIGQLRSAYGLNGWLWVYSNTEPMSNMFDYLPWYIETKAGWQ--TVDVKR 60
Query: 895 KKNHGNYVLANLYGITDRNLATKLQGYYLKISINDFPKLLSSDTFYWFNLIDCIVENI-- 952
K HG ++ +L G++DR A L + I+ + PK D +YW +L V +
Sbjct: 61 WKPHGKGLVVSLKGVSDRTGAESLVASNIWIAKSQLPK-ADVDEYYWSDLKGLTVLGLDD 119
Query: 953 --HGKLLGTVTEIIQN 966
LG + E+ +
Sbjct: 120 EEQEVNLGQIHELFET 135
>3r8n_P 30S ribosomal protein S16; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 1p6g_P 1p87_P* 1vs7_P* 2avy_P
2aw7_P 1vs5_P 2i2u_P 2i2p_P* 2qan_P* 2qb9_P* 2qbb_P*
2qbd_P 2qbf_P 2qbh_P* 2qbj_P* 2qou_P* 2qow_P* 2qoy_P*
2qp0_P* 2vho_P ...
Length = 82
Score = 89.1 bits (222), Expect = 9e-22
Identities = 28/55 (50%), Positives = 39/55 (70%)
Query: 790 ATDSRNSRDGRFIERIGFYNPLASKKEKKFKILLNRFTYWKQVGAKTSLTVDHLI 844
DSRN+R+GRFIER+GF+NP+AS+KE+ ++ L+R +W GA S V LI
Sbjct: 21 VADSRNARNGRFIERVGFFNPIASEKEEGTRLDLDRIAHWVGQGATISDRVAALI 75
>2dyi_A Probable 16S rRNA-processing protein RIMM; ribosomal protein S19,
PRC-barrel, STRU genomics, NPPSFA; 2.00A {Thermus
thermophilus} PDB: 3a1p_A 2dog_A
Length = 162
Score = 90.7 bits (226), Expect = 3e-21
Identities = 27/124 (21%), Positives = 51/124 (41%), Gaps = 11/124 (8%)
Query: 843 LITIGVVLRAYGIFGWILIKLFLDDKNIFFYARKIWFFDPNSLKLFSIKILNKKNHGNYV 902
L+ IG Y + G + + + + + +++ + + G +
Sbjct: 3 LVEIGRFGAPYALKGGLRFR----GEPVVLHLERVYVEGHGWRAIEDLYR-----VGEEL 53
Query: 903 LANLYGITDRNLATKLQGYYLKISINDFPKLLSSDTFYWFNLIDCIVENIHGKLLGTVTE 962
+ +L G+TDR LA L G + + D P L +Y+F LI V G+ +G V +
Sbjct: 54 VVHLAGVTDRTLAEALVGLRVYAEVADLPP-LEEGRYYYFALIGLPVYV-EGRQVGEVVD 111
Query: 963 IIQN 966
I+
Sbjct: 112 ILDA 115
>3pys_P 30S ribosomal protein S16; ribosome, IGR, IRES, PSIV, CRPV; 3.40A
{Thermus thermophilus} PDB: 1pnx_P 1voq_P 1vos_P 1vov_P
1vox_P 1voz_P 1pns_P 3ms0_P 3mr8_P 3pyq_P 3pyn_P 3pyu_P
3fic_P* 1emw_A 1fjg_P* 1hnw_P* 1hnx_P* 1hnz_P* 1hr0_P
1i94_P* ...
Length = 83
Score = 69.9 bits (172), Expect = 6e-15
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 790 ATDSRNSRDGRFIERIGFYNPLASKKEKKFKILLNRFTYWKQVGAKTSLTVDHLI 844
TD+R RDG++IE+IG+Y+P + K+ + R YW VGA+ + T L+
Sbjct: 21 VTDARRKRDGKYIEKIGYYDPRKT-TPDWLKVDVERARYWLSVGAQPTDTARRLL 74
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A
{Aquifex aeolicus} SCOP: d.27.1.1
Length = 112
Score = 65.8 bits (161), Expect = 3e-13
Identities = 11/55 (20%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 790 ATDSRNSRDGRFIERIGFYNPLASKKEKKFKILLNRFTYWKQVGAKTSLTVDHLI 844
D+++ R+G++I+ +G Y+P K++ + + W G + S ++
Sbjct: 22 VMDAKSPREGKYIDILGTYDP---KRKVLINVYPEKVKEWVLKGVELSHRAKAIL 73
>3bbn_P Ribosomal protein S16; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 88
Score = 63.4 bits (155), Expect = 1e-12
Identities = 16/67 (23%), Positives = 35/67 (52%), Gaps = 10/67 (14%)
Query: 790 ATDSRNSRDGRFIERIGFYNPLASKKEKKFKILLNRFTYWKQVGAKTSLTVDHLITIGVV 849
A D R+ R+GR ++++GFY+P+ + + + + + + GA+ + TV +
Sbjct: 21 AIDVRSRREGRDLQKVGFYDPI----KSQTYLNVPAILDFLEKGAQPTETVYDI------ 70
Query: 850 LRAYGIF 856
L+ +F
Sbjct: 71 LKRAEVF 77
>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 = 70.7 bits (172), Expect = 2e-12
Identities = 84/534 (15%), Positives = 160/534 (29%), Gaps = 161/534 (30%)
Query: 501 LKYIDILKLFNEDQNTDAVIMIGEIGGLDEIYAANWIKKNMKKPVIGFIAGITAPPGKRM 560
+Y DIL +F + + D + K + K I I I +
Sbjct: 16 YQYKDILSVFEDAFVDN----------FDCKDVQDMPKSILSKEEIDHI--IMSKDA--- 60
Query: 561 GHAGALITEIKKMTFLTASNGISIIQIILIDILLGSTDAIIIALACRNLQPNIRTKGII- 619
++ ++ + S ++Q + ++L + ++ + QP++ T+ I
Sbjct: 61 ------VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE 114
Query: 620 -----FGT---FGAIAIRIILVIFSIN--LLNLKYIKII-----GGF----L-------- 652
+ F + + + LL L+ K + G +
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY 174
Query: 653 ---------LFWISIKLLSNDHNYTTIASGKNLIHAIKTIIFADLIMSIDNVLAIAGTAS 703
+FW+++K ++ T + + L++ I + D+ I
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPE--TVLEMLQKLLYQID----PNWTSRSDHSSNIKLRIH 228
Query: 704 QISNKYQMLLVIIGILFSIPIIIFGSKL----VLIL--------IEKFSSIIILCSILL- 750
I + + LL SK +L+L F+ + C ILL
Sbjct: 229 SIQAELRRLLK--------------SKPYENCLLVLLNVQNAKAWNAFN---LSCKILLT 271
Query: 751 -------GYLSGN------MIFSDQSLTQLQINKLLIKNIFIFNMELHISLPATDSRNSR 797
+LS + +LT ++ LL+K + LP R
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK---YLDCRPQ-DLP----REVL 323
Query: 798 DGRFIERIGFYNPLA-SKKEKKFKILLNRFTYWKQVGAKT-----SLTVDHLITIGVVLR 851
NP S + + L + WK V +++ L R
Sbjct: 324 TT---------NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP--AEYR 372
Query: 852 AYGIFGWILIKLFLDDKNIFFYARK----IW----FFDPNSL--KLFSIKILNKKNHGNY 901
F + + F +I IW D + KL ++ K+ +
Sbjct: 373 KM--FDRLSV--FPPSAHI---PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Query: 902 VLANLYGITDRNLATKLQGYYLKISIND---FPKLLSSDTF-------YWFNLI 945
+ ++ I Y L SI D PK SD Y+++ I
Sbjct: 426 I--SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
Score = 61.4 bits (148), Expect = 1e-09
Identities = 52/312 (16%), Positives = 97/312 (31%), Gaps = 81/312 (25%)
Query: 1 MNIYEYQ------GKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHA-GG 53
+Y Q ++ K+NV+ + + +A ++ V+ I G
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQ-----PYLKLRQALLELRPAKNVL---IDGVLG 160
Query: 54 RGK-CGGIKLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISF 112
GK + + S + K KI + L C E +++ ++L
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNL--------KN---CNSPETVLEMLQKLLYQI 209
Query: 113 MTDRVQQ-----NIIF-MGSNKGGMDIEIISKNSPE-LL------YKTIIDPL-----IG 154
+ + NI + S + + + SK LL + I
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269
Query: 155 LT---KNNIDNIS----KKISIPKNSLINFYEEIQNIYKSYWETDSLL------------ 195
LT K D +S IS+ +S+ + E SLL
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSM-TLTPD---------EVKSLLLKYLDCRPQDLP 319
Query: 196 ---LEINPLVINSKNKIISLDIKFNFDTNALFRHPEIISYQYAHKKYINKIDLMEIEASK 252
L NP ++ II+ I+ T ++H + +N ++ E
Sbjct: 320 REVLTTNPRRLS----IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375
Query: 253 FDLTYIPLNGNI 264
L+ P + +I
Sbjct: 376 DRLSVFPPSAHI 387
Score = 57.2 bits (137), Expect = 2e-08
Identities = 64/455 (14%), Positives = 139/455 (30%), Gaps = 107/455 (23%)
Query: 109 YISFMTDRVQ---QNII--FMGSNKGGMDIEIISKNSPELLYKTIIDPLIGLTKNNIDNI 163
++ F T Q ++I+ F + D + + +L K ID +I K+ +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS-KDAVSGT 64
Query: 164 SKKISI----PKNSLINFYEEIQNIYKSY-WETDSLLLEINPLVINSKNKIISLDIK-FN 217
+ + + F EE+ +Y + I ++ + S+ + +
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLR--INYKFLMSP---------IKTEQRQPSMMTRMYI 113
Query: 218 FDTNALFRHPEIIS-YQYAHKKYINKID--LMEIEASKFDLTYIPLNGNIGCLVNGAG-- 272
+ L+ ++ + Y + + K+ L+E+ +K + ++G +G G
Sbjct: 114 EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK----NVLIDGVLGS-----GKT 164
Query: 273 -LAMATMDTIKLFGGEPAN-F-LDIGGGATIKTITEAFKIMMQQNNLKTILVNIFGITGK 329
+A+ + K+ F L++ ++ L + +
Sbjct: 165 WVALDVCLSYKVQCKMDFKIFWLNLK------NCNSPETVLEMLQKLLYQIDPNW----- 213
Query: 330 TGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIP----IFDTVKNAKNETGATVSVIY 385
T+ + N K + + K + + V+NAK
Sbjct: 214 -----TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK----------- 257
Query: 386 VPAIFATSAIWEA--IESELELVICITEGIPVRDMLILKNK-----------MKKNNSKT 432
W A + ++ L+ T V D L + + K+
Sbjct: 258 ---------AWNAFNLSCKI-LLT--TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 433 LL---LGPNCPGLIVPEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSS 489
LL L L P E+ P + I R G T++ +
Sbjct: 306 LLLKYLDCRPQDL--PREVL-TTNPRRL---SIIAESIRDGLATWDNWKHVNCDKLTTII 359
Query: 490 AVGIGG-DPINGLKYIDILKLFNEDQN-TDAVIMI 522
+ +P K D L +F + ++ +
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394
Score = 57.2 bits (137), Expect = 3e-08
Identities = 68/521 (13%), Positives = 154/521 (29%), Gaps = 174/521 (33%)
Query: 1 MNIYEYQGKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGI 60
++YQ K+IL F C +V + K+ ++
Sbjct: 11 TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS---------ILSK------------- 48
Query: 61 KLAQSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISFMTDRVQQN 120
E+++ I+ + S T L + ++E+ F+ + ++ N
Sbjct: 49 ------EEIDH----IIMSKDAVSGTL--------RLFWTLLSKQEEMVQKFVEEVLRIN 90
Query: 121 IIFMGSNKGGMDIEIISKNSPELLYKTIIDPLIG----LTKNNIDNISKKISIPKNSLIN 176
F+ S + E + +Y D L K N+ + + + + +L+
Sbjct: 91 YKFLMSP---IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL-RQALLE 146
Query: 177 FYEEIQNIY--------KS--------------------YW------ETDSLLLEI--NP 200
+N+ K+ +W + +LE+
Sbjct: 147 LRPA-KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL 205
Query: 201 LVINSKNKIISLDIKFN--FDTNALFRHPEIISYQYAHKKYINK-IDLMEIEASK----F 253
L N D N +++ + K Y N + L+ ++ +K F
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSI---QAELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262
Query: 254 DLTYIPLNGNIGC--LV---------------------NGAGLAMATMDTIKLFGGEPAN 290
+ + C L+ + + + + L
Sbjct: 263 N---------LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL----LK 309
Query: 291 FLDIGGGATIKTI-TEAFKIMMQQNNLKTILVNIFGITGKTGRFHTNLCLNYGNGK---- 345
+LD + + E N ++I + + G + + K
Sbjct: 310 YLDC----RPQDLPREVLTT----NPR---RLSIIAESIRDGLATWDNWKHVNCDKLTTI 358
Query: 346 -KAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVIYVPAIFATSAIW-EAIESEL 403
++ + + P + + F+ + +F +A +P I S IW + I+S++
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFP--PSAH-----------IPTI-LLSLIWFDVIKSDV 404
Query: 404 ELVI--CITEGIPVRD---------MLILKNKMKKNNSKTL 433
+V+ + + + L+ K+K N L
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Score = 42.9 bits (100), Expect = 5e-04
Identities = 34/221 (15%), Positives = 69/221 (31%), Gaps = 59/221 (26%)
Query: 6 YQGKEILRKFNVTIPKGILC-----MNVDEAIKAAKKIGGNSWVIKAQ------IHAGGR 54
+ + + IP +L + + + K+ S V K I
Sbjct: 375 FDRLSVFPP-SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP---- 429
Query: 55 GKCGGIKLAQSLEQVEKYT--KKILGMQLITSQTNQEG------ENVFCVLI-------- 98
I L ++ +Y + I+ I + + + F I
Sbjct: 430 ----SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE 485
Query: 99 -EEYIDIKKELYISFMTDRVQQNIIFMGSNKGG--------MDIEI----ISKNSP--EL 143
E + + + +++ F ++Q I + ++ I N P E
Sbjct: 486 HPERMTLFRMVFLDF--RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 144 LYKTIIDPLIGLTKNNIDNISKKISIPKNSLIN----FYEE 180
L I+D L + +N I SK + + +L+ +EE
Sbjct: 544 LVNAILDFLPKIEENLI--CSKYTDLLRIALMAEDEAIFEE 582
>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 = 58.8 bits (143), Expect = 5e-09
Identities = 53/253 (20%), Positives = 105/253 (41%), Gaps = 33/253 (13%)
Query: 328 GKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATV--SVIY 385
K G Y GK V VN K ++ + + + +VK + + ++I
Sbjct: 21 KKLGYEVFKNLKEYKKGK---VYPVNIK--EEEVQGVKAYKSVK----DIPDEIDLAIIV 71
Query: 386 VPAIFATSAIWEAIESELELVICITEGI--PVRDMLILKNKMKK--NNSKTLLLGPNCPG 441
VP F + + E ++ V+ IT G + + ++ + + ++GPNC G
Sbjct: 72 VPKRFVKDTLIQCGEKGVKGVVIITAGFGETGEEGKREEKELVEIAHKYGMRIIGPNCVG 131
Query: 442 LIVPEEIKIGIMPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPING- 500
++ + + + KKG + +S+SG L +V + + G S + +G N
Sbjct: 132 IMNTH-VDLNATFITVAKKGNVAFISQSGALGAGIVYKTIKEDIGFSKFISVG----NMA 186
Query: 501 -LKYIDILKLFNEDQNTDAVIMIGEIGGLDE----IYAANWIKKNMKKPVIGFIAGITAP 555
+ + ++++ + + A+ + E G+ + A + K KKP+I AG +
Sbjct: 187 DVDFAELMEYLADTEEDKAIALYIE--GVRNGKKFMEVAKRVTK--KKPIIALKAGKSE- 241
Query: 556 PGKR--MGHAGAL 566
G R H G+L
Sbjct: 242 SGARAASSHTGSL 254
Score = 34.5 bits (80), Expect = 0.19
Identities = 24/150 (16%), Positives = 50/150 (33%), Gaps = 34/150 (22%)
Query: 257 YIPLNGNIGCLVNGAGLAMATMDTIKLFGGEPANF---------------------LDIG 295
+P + + N G + T D + G + A +D+
Sbjct: 289 PLPRGNKVAIMTNAGGPGVLTADELDKRGLKLATLEEKTIEELRSFLPPMAAVKNPVDMI 348
Query: 296 GGATIKTITEAFKIMMQQNNLKTILVNIFGITGKTGRFHTNL------CLNYGNGKK--- 346
A + K+++Q N+ ++ I + G T + N +K
Sbjct: 349 ASARGEDYYRTAKLLLQDPNVDMLIA-ICVVPTFAGMTLTEHAEGIIRAVKEVNNEKPVL 407
Query: 347 -AFVAGVNPKKNGQKFEE--IPIFDTVKNA 373
F+AG +K + E+ IP ++ ++
Sbjct: 408 AMFMAGYVSEKAKELLEKNGIPTYERPEDV 437
>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 = 59.3 bits (143), Expect = 6e-09
Identities = 91/548 (16%), Positives = 157/548 (28%), Gaps = 228/548 (41%)
Query: 107 EL---YISFMTDRVQQNII-----------------FMGSNKGGMDIEIISKNSPELLYK 146
EL ++ +++ V+ + + ++ N DI ++ +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN----DIHALAAKLLQ---- 110
Query: 147 TIIDPLIGLTKNNIDN-------ISKKISIPKNS-LIN------------F--------Y 178
D + TK I N + NS L F Y
Sbjct: 111 -ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDY 169
Query: 179 -EEIQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNALFRH----------- 226
EE++++Y++Y +L+ L+ S + L I+ D +F
Sbjct: 170 FEELRDLYQTY----HVLVG--DLIKFSAETLSEL-IRTTLDAEKVFTQGLNILEWLENP 222
Query: 227 ----------------PEIISYQYAHKKYINKIDLMEIEASKFDLTYIPLNGNI-GCLVN 269
P I Q AH Y+ + A T L + G +
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQLAH--YV-------VTAKLLGFTPGELRSYLKGATGH 273
Query: 270 GAGL----AMATMDTIKLFGGEPANFLDIGGGATIKTITEAFKI---------------- 309
GL A+A D+ +F + K IT F I
Sbjct: 274 SQGLVTAVAIAETDSW-------ESFFV----SVRKAITVLFFIGVRCYEAYPNTSLPPS 322
Query: 310 MMQQ-----NNLKTILVNIFGITGKTGRFH---TNLCLNYG--------NGKKAFV---- 349
+++ + + +++I +T + + + TN L G NG K V
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 350 ----AGVN--------PKKNGQKFEEIPIFDTVKNAKNETGATVSVIYVPAIFA------ 391
G+N P Q IP F K S ++P + +
Sbjct: 383 PQSLYGLNLTLRKAKAPSGLDQS--RIP-FSERK-------LKFSNRFLP-VASPFHSHL 431
Query: 392 -TSAIWEAIESELELVICITEG----IPV------RDM-------------LILKNKM-- 425
A + I +L IPV D+ I++ +
Sbjct: 432 LVPAS-DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKW 490
Query: 426 ----KKNNSKTLLLGP-NCPGLIVPEEIKIGIMPGNIHKKGR-IGVVSRSGTLTYEVVCQ 479
+ + L GP GL G++ K G + V+ +GTL
Sbjct: 491 ETTTQFKATHILDFGPGGASGL--------GVLTHRN-KDGTGVRVIV-AGTLDINPD-- 538
Query: 480 LTELGFGQ 487
+ GF Q
Sbjct: 539 -DDYGFKQ 545
Score = 55.8 bits (134), Expect = 6e-08
Identities = 51/261 (19%), Positives = 87/261 (33%), Gaps = 95/261 (36%)
Query: 307 FKIM-MQQNNLKTILVNIFGITGKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQK-FEEI 364
F I+ + NN + ++ FG G+ G+ + NY F V+ K +K F+EI
Sbjct: 1659 FSILDIVINNPVNLTIH-FG--GEKGK---RIRENYS--AMIFETIVDGKLKTEKIFKEI 1710
Query: 365 P------IFDTVKNAKNETGATVSVIYVPAIFATS-AIWEAIESE-------------L- 403
F + K + T T PA+ A +E ++S+ L
Sbjct: 1711 NEHSTSYTFRSEKGLLSATQFTQ-----PALTLMEKAAFEDLKSKGLIPADATFAGHSLG 1765
Query: 404 E---LVICITEGIPVRDMLIL--------KNKMKKNNSKTLLLGPNCPGLIVPEEIKIGI 452
E L + + + + ++ + + + ++ LG + G+ I I
Sbjct: 1766 EYAALA-SLADVMSIESLVEVVFYRGMTMQVAVPRDE-----LGRSNYGM-------IAI 1812
Query: 453 MPGNIHKKGRI----GVVSRSGTLTYEVVCQLTELGFGQSSAV-----G----IGGDP-- 497
PG + VV R G T +V V GD
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLV-----------EIVNYNVENQQYVAAGDLRA 1861
Query: 498 ----INGLKY-----IDILKL 509
N L + IDI++L
Sbjct: 1862 LDTVTNVLNFIKLQKIDIIEL 1882
Score = 49.3 bits (117), Expect = 7e-06
Identities = 64/372 (17%), Positives = 112/372 (30%), Gaps = 151/372 (40%)
Query: 125 GS-NKG-GMDIEIISKNSP--------------ELLYKTIIDPLIGLTKNNIDNISKKIS 168
GS +G GMD+ K S + +I+D + NN
Sbjct: 1625 GSQEQGMGMDLY---KTSKAAQDVWNRADNHFKDTYGFSILD----IVINN--------- 1668
Query: 169 IPKNSLINFY-EEIQNIYKSYWETDSLLLEINPLVINSKNKIISLDIKFNFDTNAL-FRH 226
P N I+F E+ + I ++Y +++ E + K K + + N + + FR
Sbjct: 1669 -PVNLTIHFGGEKGKRIRENY---SAMIFETIV---DGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 227 PEIISYQYAHKKYINKIDLMEIEASKFDLTYI--PLNGNIGCLVNGAGLAM--ATMDTIK 282
+ L+ T P A M A + +K
Sbjct: 1722 EK---------------GLL-------SATQFTQP-----------ALTLMEKAAFEDLK 1748
Query: 283 LFGGEPANFLDIG---G-------GATIKTITEAFKIMMQQNNLKTILVNIFGIT----- 327
G PA+ G G A + +I + +V G+T
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIESLVE-----------VVFYRGMTMQVAV 1797
Query: 328 --GKTGRFHTNLCLNYGNGKKAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVI- 384
+ GR NYG + +NP + F + + V+ TG V ++
Sbjct: 1798 PRDELGR------SNYG------MIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN 1845
Query: 385 -------YVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLLLGP 437
YV + A++ +T +L N +K + L
Sbjct: 1846 YNVENQQYV-----AAGDLRALD-------TVTN--------VL-NFIKLQKIDIIEL-- 1882
Query: 438 NCPGLIVPEEIK 449
+ EE++
Sbjct: 1883 --QKSLSLEEVE 1892
Score = 43.1 bits (101), Expect = 5e-04
Identities = 89/557 (15%), Positives = 153/557 (27%), Gaps = 221/557 (39%)
Query: 286 GEPANFLDIGGGATIKTITEAFKIM-MQQNNLKTILVNIFGITGKTGRFHTNLCLNY--- 341
+ F + + F+ ++ N++ + + T L NY
Sbjct: 75 SKVGQFDQV-----LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 342 ---------GNGKKAFVAGVNPKK-------NGQK-----FEEI-PIFDTVKNAKNETGA 379
A V GQ FEE+ ++ T
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQT---------- 179
Query: 380 TVSVIYVPAI-----FATSAIWEAIESELELVICITEGIPVRDMLILKNKMKKNNSKTLL 434
Y + F+ + E I + L+ T+G+ + + L +N S T
Sbjct: 180 -----YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL-------ENPSNT-- 225
Query: 435 LGPNCPGLI-VPEEIKIGI-MPGNIHKKGRIGVVSRSGTLTYEVVCQLTELGFGQ----- 487
P+ L+ +P I P IGV+ Y V +L G+
Sbjct: 226 --PDKDYLLSIP------ISCPL-------IGVIQ---LAHYVVTAKLLGFTPGELRSYL 267
Query: 488 SSAVGIGGDPI----------------NGLKYIDILKLF---------------NEDQNT 516
A G + + K I + LF
Sbjct: 268 KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV--LFFIGVRCYEAYPNTSLPPSILE 325
Query: 517 DAVI--------MIGEIGGLDEIYAANWIKK-NMKKP-----VIGFIAG-----ITAPPG 557
D++ M+ I L + +++ K N P I + G ++ PP
Sbjct: 326 DSLENNEGVPSPMLS-ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ 384
Query: 558 ----------KRMGHAGALITEI----KK----MTFL--TA---SNGISIIQIILIDILL 594
K +G + I +K FL + S +L+
Sbjct: 385 SLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS-----------HLLV 433
Query: 595 GSTDAIIIALACRNLQPNIRTKGI-IFGTF---------GAIAIRIILVIFSINLLNLKY 644
++D I L N+ N + I ++ TF G+I+ RI+ I +
Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLP------ 487
Query: 645 IKIIGGFLLFWISIKLLSNDHNYTTI-------ASG-KNLIHAIKT-----IIFADLIMS 691
+ W + + T I ASG L H K +I A +
Sbjct: 488 --------VKWET----TTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAG---T 532
Query: 692 IDNVLAIAGTASQISNK 708
+D K
Sbjct: 533 LDI-----NPDDDYGFK 544
Score = 42.0 bits (98), Expect = 0.001
Identities = 41/226 (18%), Positives = 76/226 (33%), Gaps = 50/226 (22%)
Query: 737 EKFSSIIILCSILLGYLSGNMIFSDQSLTQLQINKLLIKNI---FIFNMELH---ISLPA 790
++ ++ L LGY+S + S Q+ L + ++ ++H L
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFD-QVLNLCLTEFENCYLEGNDIHALAAKLLQ 110
Query: 791 TDS----------RNSRDGRFIERIGFYNPLASK-----KEKKFKILL------NRFTYW 829
+ +N R + + F S E +++ N Y+
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 830 KQVGA--KTSLT-VDHLI-TIGVVLRAYGIFGWILIKLFLDDKNIFFYARKI--WFFDPN 883
+++ +T V LI L LI+ LD + +F I W +P+
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSE-------LIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 884 S------LK--LFSIKILNKKNHGNY-VLANLYGITDRNLATKLQG 920
+ L S ++ +Y V A L G T L + L+G
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG 269
Score = 37.3 bits (86), Expect = 0.032
Identities = 48/300 (16%), Positives = 91/300 (30%), Gaps = 107/300 (35%)
Query: 556 PGKRMGH--------AGALITEIKKMTFLTASNGISIIQIILIDILLGSTDAIIIALACR 607
G MG A + + G SI+ I+
Sbjct: 1629 QG--MGMDLYKTSKAAQDVWNRADN--HFKDTYGFSILDIV------------------I 1666
Query: 608 NLQPNIRTKGIIFGTFGAIAIRIILVIFSINLLNLKYIKIIGGFLLFWISIKLLSNDHNY 667
N N I FG IR N + + I+ G L K ++
Sbjct: 1667 N---NPVNLTIHFGGEKGKRIR-------ENYSAMIFETIVDGKLKTEKIFKEINEHSTS 1716
Query: 668 TTIASGKNLIH-------AIKTI---IFADL----------------------------I 689
T S K L+ A+ + F DL +
Sbjct: 1717 YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 690 MSIDNVLAIA---GTASQIS--------NKYQMLLVIIGILFSIPIIIFGSKLVLILIEK 738
MSI++++ + G Q++ + Y M+ + G + F + + ++E+
Sbjct: 1777 MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPG---RV-AASFSQEALQYVVER 1832
Query: 739 FSSII-ILCSI----LLG--Y-LSGNMIFSDQSLTQLQ--INKLLIKNIFIFNMELHISL 788
L I + Y +G++ ++L + +N + ++ I I ++ +SL
Sbjct: 1833 VGKRTGWLVEIVNYNVENQQYVAAGDL----RALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
Score = 33.1 bits (75), Expect = 0.63
Identities = 67/401 (16%), Positives = 118/401 (29%), Gaps = 123/401 (30%)
Query: 527 GLDEIYAANWIKKNMKKPVIGFIAGITAP---PGKRMGHAGALITEIKKMTFLTASN--G 581
GL+ I W++ P ++ + P P LI I+ ++ + G
Sbjct: 212 GLN-ILE--WLENPSNTPDKDYLL--SIPISCP---------LIGVIQLAHYVVTAKLLG 257
Query: 582 ISIIQIILIDILLGSTDAIIIALACRNLQPNIRTKGIIFGTFGAIAIRIILVIFSINLLN 641
+ + L L G+T ++G++ A+AI S +
Sbjct: 258 FTPGE--LRSYLKGAT---------------GHSQGLV----TAVAIAETDSWESFFVSV 296
Query: 642 LKYIKIIGGFLLFWI--------SIKLLSNDHNYTTIASGKN-----LIHAIKTIIFADL 688
K I + LF+I L ++ + + L +I + +
Sbjct: 297 RKAITV-----LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML--SISNLTQEQV 349
Query: 689 IMSIDNVLAIAGTASQIS----NKYQMLLVIIGILFSIPIIIFGSKLVLILIEKFSSIII 744
++ + Q+ N + LV+ G P ++G L L L K +
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKN-LVVSG----PPQSLYG--LNLTL-RKAKA--- 398
Query: 745 LCSILLGYLSGNMIFSDQSLTQLQINKLLIKNIFIFNMELHISLPATDSRNSRDGRFIER 804
SG DQS KL N F L ++ P
Sbjct: 399 --------PSG----LDQSRIPFSERKLKFSNRF-----LPVASP--------------- 426
Query: 805 IGFYNP-LASKKEKKFKILLNRFTYWKQVGAKTSLTVDHLITIGVVLRAYG------IFG 857
F++ L + K L+ + + V G LR I
Sbjct: 427 --FHSHLLVPASDLINKDLVKNNVSFN--AKDIQIPVYDTFD-GSDLRVLSGSISERIVD 481
Query: 858 WILIKLFLD-DKNIFFYARKIWFFDPNSLKLFSIKILNKKN 897
I+ + + F A I F P + +L +N
Sbjct: 482 CIIRLP-VKWETTTQFKATHILDFGPGGAS--GLGVLTHRN 519
>4dim_A Phosphoribosylglycinamide synthetase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
ligase; 2.61A {Anaerococcus prevotii}
Length = 403
Score = 51.6 bits (124), Expect = 7e-07
Identities = 18/95 (18%), Positives = 41/95 (43%), Gaps = 16/95 (16%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQSLEQ 68
KE +K+NV + + N +E A + + ++KA G + GI +A+ E+
Sbjct: 114 KEAFKKYNVNTARHFVVRNENELKNALENLKL-PVIVKATDLQGSK----GIYIAKKEEE 168
Query: 69 VEKYTKKILGMQLITSQTNQEGENVFCVLIEEYID 103
+ + + ++ + ++EE+I+
Sbjct: 169 AIDGFNETMNL----TKRDY-------CIVEEFIE 192
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 51.1 bits (122), Expect = 1e-06
Identities = 14/95 (14%), Positives = 30/95 (31%), Gaps = 6/95 (6%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQSLEQ 68
++ K V K +++ A ++IG ++K A G+ L E
Sbjct: 144 RDAFNKAGVKSIKNKRVTTLEDFRAALEEIGT-PLILKPTYLASSI----GVTLITDTET 198
Query: 69 VEKYTKKILGMQLITSQTNQEGENVFCVLIEEYID 103
E ++ + + EE++
Sbjct: 199 AEDEFNRVNDYLKSINVPKAVTFE-APFIAEEFLQ 232
>1wr2_A Hypothetical protein PH1789; structural genomics, NPPSFA, national
on protein structural and functional analyses; 2.00A
{Pyrococcus horikoshii}
Length = 238
Score = 46.0 bits (110), Expect = 2e-05
Identities = 31/137 (22%), Positives = 66/137 (48%), Gaps = 15/137 (10%)
Query: 5 EYQGKEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQ----IHAGGRGKCGGI 60
EY+ K++L+ + + +P+ L +DEA++ AK+IG V+K +H + +
Sbjct: 22 EYEAKQVLKAYGLPVPEEKLAKTLDEALEYAKEIGY-PVVLKLMSPQILH---KSDAKVV 77
Query: 61 KLA-QSLEQVEKYTKKILGMQLITSQTNQEGENVFCVLIEEYIDIKKELYISFMTDRVQQ 119
L ++ E+++K ++I ++ + + VL+ + +E+ I D
Sbjct: 78 MLNIKNEEELKKKWEEIHE----NAKKYRPDAEILGVLVAPMLKPGREVIIGVTEDPQFG 133
Query: 120 NIIFMGSNKGGMDIEII 136
+ I G GG+ +EI+
Sbjct: 134 HAIMFGL--GGIFVEIL 148
>3ln6_A Glutathione biosynthesis bifunctional protein GSH; gamma-glutamyl
cysteine ligase domain, ATP-grAsp domain, HYB enzyme;
2.95A {Streptococcus agalactiae serogroup V}
Length = 750
Score = 41.0 bits (96), Expect = 0.002
Identities = 22/94 (23%), Positives = 37/94 (39%), Gaps = 14/94 (14%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQSLEQ 68
K+IL + + P G + EA+ +I V+K + + G GI + ++
Sbjct: 489 KKILDEKHFPTPFGDEFTDRKEALNYFSQIQDKPIVVKPK--STNFGL--GISIFKTSAN 544
Query: 69 VEKYTKKILGMQLITSQTNQEGENVFCVLIEEYI 102
+ Y K I E +L+EEYI
Sbjct: 545 LASYEKAI-------DIAFTEDSA---ILVEEYI 568
>3va7_A KLLA0E08119P; carboxylase, ligase; HET: BTI; 2.60A {Kluyveromyces
lactis}
Length = 1236
Score = 38.8 bits (91), Expect = 0.010
Identities = 24/101 (23%), Positives = 46/101 (45%), Gaps = 23/101 (22%)
Query: 9 KEILRKFNV-TIPKGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLAQS 65
+EI + V +P L + EA + AKK+ + ++K+ AGG G G++ S
Sbjct: 149 REIAERAKVPLVPGSGLIKDAKEAKEVAKKLE---YPVMVKST--AGGGGI--GLQKVDS 201
Query: 66 LEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
+ +E+ T Q +G++ F V +E +++
Sbjct: 202 EDDIER--------VFETVQ--HQGKSYFGDAGVFMERFVN 232
>2cqy_A Propionyl-COA carboxylase alpha chain, mitochondrial; PCCA, B
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 108
Score = 35.2 bits (82), Expect = 0.015
Identities = 32/101 (31%), Positives = 54/101 (53%), Gaps = 22/101 (21%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQS 65
K + +K V TIP G++ + +EA++ A++I G +IKA AGG GK G+++A
Sbjct: 13 KLLAKKAEVNTIPGFDGVV-KDAEEAVRIAREI-GYPVMIKAS--AGGGGK--GMRIAWD 66
Query: 66 LEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
E+ G + ++QE + F +LIE++ID
Sbjct: 67 DEETRD------GFR----LSSQEAASSFGDDRLLIEKFID 97
>2w70_A Biotin carboxylase; ligase, ATP-binding, fatty acid biosynthesis,
nucleotide-BIN lipid synthesis, ATP-grAsp domain,
fragment screening; HET: L22; 1.77A {Escherichia coli}
PDB: 1bnc_A 2j9g_A* 2v58_A* 2v59_A* 2v5a_A* 2vr1_A*
2w6m_A* 1dv1_A* 2w6o_A* 2w6n_A* 2w6q_A* 2w6z_A* 2w6p_A*
2w71_A* 3jzf_A* 3jzi_A* 3rv3_A* 3rup_A* 1dv2_A* 3rv4_A*
...
Length = 449
Score = 37.4 bits (88), Expect = 0.020
Identities = 24/103 (23%), Positives = 46/103 (44%), Gaps = 25/103 (24%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLA 63
++K V +P G L ++D+ AK+IG + +IKA GG G+ G+++
Sbjct: 120 IAAMKKAGVPCVPGSDGPLGDDMDKNRAIAKRIG---YPVIIKAS--GGGGGR--GMRVV 172
Query: 64 QSLEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
+ ++ + S T E + F V +E+Y++
Sbjct: 173 RGDAELAQ----------SISMTRAEAKAAFSNDMVYMEKYLE 205
>3ln7_A Glutathione biosynthesis bifunctional protein GSH;
gamma-glutamylcysteine ligase domain, ATP-grAsp domain,
HYBR enzyme, ATP-binding; 3.20A {Pasteurella multocida}
Length = 757
Score = 37.2 bits (86), Expect = 0.029
Identities = 17/94 (18%), Positives = 40/94 (42%), Gaps = 13/94 (13%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQSLEQ 68
K++L+K +P+ + ++++A+ + + VIK + G G + Q+ E
Sbjct: 494 KKVLQKAGFNVPQSVEFTSLEKAVASYALFENRAVVIKPKSTNYGLGITIFQQGVQNRED 553
Query: 69 VEKYTKKILGMQLITSQTNQEGENVFCVLIEEYI 102
K + +E + V++E+Y+
Sbjct: 554 FAKALEIAF----------REDKE---VMVEDYL 574
>3rst_A Signal peptide peptidase SPPA; alpha/beta protein fold, signal
peptide digestion, bacterial membrane, hydrolase; 2.37A
{Bacillus subtilis}
Length = 240
Score = 36.1 bits (84), Expect = 0.037
Identities = 20/91 (21%), Positives = 36/91 (39%), Gaps = 17/91 (18%)
Query: 462 RIGVVSRSGTLTYEVVCQLTELGFGQSSAVGIGGDPINGLKYIDILKLFNEDQNTDAVIM 521
+I V+ SGT+ S+ +G D N ++ L+ +D+ +++
Sbjct: 4 KIAVLEVSGTIQD-----------NGDSSSLLGADGYNHRTFLKNLERAKDDKTVKGIVL 52
Query: 522 I-----GEIGGLDEIYAA-NWIKKNMKKPVI 546
G + EI+ IKK KKP+
Sbjct: 53 KVNSPGGGVYESAEIHKKLEEIKKETKKPIY 83
>3ouz_A Biotin carboxylase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta fold,
cytosol, LIG; HET: MSE ADP SRT TLA; 1.90A {Campylobacter
jejuni subsp} PDB: 3ouu_A*
Length = 446
Score = 34.4 bits (80), Expect = 0.17
Identities = 26/103 (25%), Positives = 47/103 (45%), Gaps = 26/103 (25%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLA 63
K+++++ V IP G L + A K AK+IG + ++KA AGG G+ G+++
Sbjct: 124 KQVMQRAGVPVIPGSDGAL-AGAEAAKKLAKEIG---YPVILKAA--AGGGGR--GMRVV 175
Query: 64 QSLEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
++ + +EK E F + +E+YI
Sbjct: 176 ENEKDLEK------AYW----SAESEAMTAFGDGTMYMEKYIQ 208
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 34.4 bits (80), Expect = 0.20
Identities = 22/94 (23%), Positives = 42/94 (44%), Gaps = 16/94 (17%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIGGNSWVIKAQIHAGGRGKCGGIKLAQSLEQ 68
++K + + + ++EA+ A +G +I+ GG G GGI A + E+
Sbjct: 133 DVAMKKIGLETARSGIAHTMEEALAVAADVGFPC-IIRPSFTMGGSG--GGI--AYNREE 187
Query: 69 VEKYTKKILGMQLITSQTNQEGENVFCVLIEEYI 102
E+ + G+ L S T + +LI+E +
Sbjct: 188 FEEICAR--GLDL--SPTKE-------LLIDESL 210
Score = 31.3 bits (72), Expect = 2.1
Identities = 6/31 (19%), Positives = 15/31 (48%)
Query: 9 KEILRKFNVTIPKGILCMNVDEAIKAAKKIG 39
+ + + + P ++ A++ AK+IG
Sbjct: 679 QHAVERLKLKQPANATVTAIEMAVEKAKEIG 709
>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 = 32.6 bits (73), Expect = 0.27
Identities = 6/29 (20%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 422 KNKMKKNNSKTLLLGPN-CPGLIVPEEIK 449
K +KK + L + P L + ++
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
>2vpq_A Acetyl-COA carboxylase; bacteria, ATP-grAsp domain, biotin
carboxylase, ligase; HET: ANP; 2.1A {Staphylococcus
aureus}
Length = 451
Score = 33.6 bits (78), Expect = 0.29
Identities = 33/103 (32%), Positives = 52/103 (50%), Gaps = 26/103 (25%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLA 63
K + K NV +P G++ +V EA K AKKIG + +IKA AGG GK GI++A
Sbjct: 119 KAEMIKANVPVVPGSDGLM-KDVSEAKKIAKKIG---YPVIIKAT--AGGGGK--GIRVA 170
Query: 64 QSLEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
+ +++E T QE + F + +E++I+
Sbjct: 171 RDEKELET----------GFRMTEQEAQTAFGNGGLYMEKFIE 203
>1ulz_A Pyruvate carboxylase N-terminal domain; biotin carboxylase; 2.20A
{Aquifex aeolicus} SCOP: b.84.2.1 c.30.1.1 d.142.1.2
Length = 451
Score = 33.2 bits (77), Expect = 0.43
Identities = 29/103 (28%), Positives = 57/103 (55%), Gaps = 26/103 (25%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLA 63
KE+++K V +P G+L +++EA A++IG + ++KA AGG G+ GI++
Sbjct: 119 KEVMKKAGVPVVPGSDGVL-KSLEEAKALAREIG---YPVLLKAT--AGGGGR--GIRIC 170
Query: 64 QSLEQVEKYTKKILGMQLITSQTNQEGENVF---CVLIEEYID 103
++ E++ K + Q ++E E F +L+E++I+
Sbjct: 171 RNEEELVK------NYE----QASREAEKAFGRGDLLLEKFIE 203
>2duw_A Putative COA-binding protein; ligand binding protein; NMR
{Klebsiella pneumoniae}
Length = 145
Score = 31.2 bits (71), Expect = 0.79
Identities = 23/142 (16%), Positives = 52/142 (36%), Gaps = 18/142 (12%)
Query: 311 MQQNNLKTILVN-----IFGITGKTGRFHTNLCLNY--GNGKKAFVAGVNPKKNGQKFEE 363
M++N++ IL + + G + K R + + Y G V V+PK G+
Sbjct: 1 MKENDIAGILTSTRTIALVGASDKPDRP-SYRVMKYLLDQGYH--VIPVSPKVAGKTLLG 57
Query: 364 IPIFDTVKNAKNETGATVSVIYVPAIFATSAIWEAIESELELVICITEGIPVRDMLILKN 423
+ T+ + + + ++ + A EAI + + + G+
Sbjct: 58 QQGYATLADVPEKV--DMVDVFRNSEAAWGVAQEAIAIGAKTLW-LQLGVINEQ---AAV 111
Query: 424 KMKKNNSKTLLLGPNCPGLIVP 445
++ ++ CP + +P
Sbjct: 112 LAREAGLS--VVMDRCPAIELP 131
>3jrx_A Acetyl-COA carboxylase 2; BC domain, soraphen A, alternative
splicing, ATP-binding, biotin, fatty acid biosynthesis,
ligase, lipid synthesis; HET: S1A; 2.50A {Homo sapiens}
PDB: 3jrw_A*
Length = 587
Score = 32.3 bits (74), Expect = 0.94
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 9/50 (18%)
Query: 24 LCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLAQSLEQVEK 71
+VDE ++AA++IG + +IKA GG GK GI+ A+S E
Sbjct: 229 CVKDVDEGLEAAERIG---FPLMIKAS--EGGGGK--GIRKAESAEDFPI 271
>3glk_A Acetyl-COA carboxylase 2; ATP binding, alternative splicing,
ATP-binding, biotin, fatty acid biosynthesis, ligase,
lipid synthesis, manganese; 2.10A {Homo sapiens} PDB:
3gid_A 2hjw_A 2yl2_A
Length = 540
Score = 32.2 bits (74), Expect = 0.95
Identities = 19/50 (38%), Positives = 28/50 (56%), Gaps = 9/50 (18%)
Query: 24 LCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLAQSLEQVEK 71
+VDE ++AA++IG + +IKA GG GK GI+ A+S E
Sbjct: 213 CVKDVDEGLEAAERIG---FPLMIKAS--EGGGGK--GIRKAESAEDFPI 255
>1w96_A ACC, acetyl-coenzyme A carboxylase; ligase, obesity, diabetes,
fatty acid metabolism, structure-based drug design; HET:
S1A; 1.8A {Saccharomyces cerevisiae} SCOP: b.84.2.1
c.30.1.1 d.142.1.2 PDB: 1w93_A
Length = 554
Score = 31.5 bits (72), Expect = 1.5
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 9/50 (18%)
Query: 24 LCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLAQSLEQVEK 71
C + ++ ++ AK+IG + +IKA GG GK GI+ + E
Sbjct: 219 CCTSPEDGLQKAKRIG---FPVMIKAS--EGGGGK--GIRQVEREEDFIA 261
>3b8c_A ATPase 2, plasma membrane-type; P-type ATPase, proton pump,
ATP-binding, hydrogen ION transport, hydrolase, ION
transport; HET: ACP; 3.60A {Arabidopsis thaliana}
Length = 885
Score = 31.5 bits (72), Expect = 1.9
Identities = 18/151 (11%), Positives = 47/151 (31%), Gaps = 20/151 (13%)
Query: 582 ISIIQIILIDILLGSTDAIIIALACRNLQPNIRTKGIIFGTFGAIAIRIILVIFSINLLN 641
S +++I IL D I+ ++ ++P+ A + +
Sbjct: 671 FSAFMVLIIAIL---NDGTIMTISKDRVKPSPTPDSWKLKEIFATGVVLGGYQ------- 720
Query: 642 LKYIKIIGGFLLFWISIKLLSNDHNYTTIASGKNLIHAIKTIIFADLIMSIDNVLAIAGT 701
I + FW + K + + N ++ + + ++ + +
Sbjct: 721 -----AIMTVIFFWAAHKTDFFSDTFGVRSIRDNNHEL-MGAVYLQVSIISQALIFVTRS 774
Query: 702 AS----QISNKYQMLLVIIGILFSIPIIIFG 728
S + M+ +I L + I ++
Sbjct: 775 RSWSFVERPGALLMIAFLIAQLIATLIAVYA 805
>2g8g_A Capsid; adeno-associated virus serotype 4, gene therapy,
icosahedral virus; HET: D5M; 3.20A {Adeno-associated
virus - 4}
Length = 524
Score = 30.5 bits (68), Expect = 2.7
Identities = 23/109 (21%), Positives = 32/109 (29%), Gaps = 15/109 (13%)
Query: 141 PELLYKTIIDPLIG--------------LTKNNIDNISKKISIPKNSLINFYEEIQNIYK 186
P PLIG T + + S P NS I Y Q +
Sbjct: 411 PHTDGHFHPSPLIGGFGLKHPPPQIFIKNTPVPANPATTFSSTPVNSFITQYSTGQVSVQ 470
Query: 187 SYWETDSLLLEI-NPLVINSKNKIISLDIKFNFDTNALFRHPEIISYQY 234
WE + NP V + N + + D + P I +Y
Sbjct: 471 IDWEIQKERSKRWNPEVQFTSNYGQQNSLLWAPDAAGKYTEPRAIGTRY 519
>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin,
phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}
Length = 334
Score = 29.9 bits (68), Expect = 4.2
Identities = 10/39 (25%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 271 AGLAMATMDTIKLFGGEPANFLDIGG--GATIKTITEAF 307
+A + +L +F+D+GG G K I +A
Sbjct: 151 KASNLAFHEIPRLLDFRGRSFVDVGGGSGELTKAILQAE 189
>1o5x_A TIM, triosephosphate isomerase; 2- phosphoglycerate,
META-phosphate, catalytic LOOP6; HET: 2PG; 1.10A
{Plasmodium falciparum} SCOP: c.1.1.1 PDB: 1lzo_A
1m7o_A* 1m7p_A* 1lyx_A* 1ydv_A 2vfi_A* 3psw_A 3psv_A
3pwa_A 2vfh_A* 2vff_A 2vfg_A* 1vga_A 1woa_A* 1wob_A
3pvf_A 3py2_A 2vfd_A 2vfe_A*
Length = 248
Score = 28.6 bits (65), Expect = 9.5
Identities = 11/60 (18%), Positives = 23/60 (38%), Gaps = 2/60 (3%)
Query: 346 KAFVAGVNPKKNGQKFEEIPIFDTVKNAKNETGATVSVIYVPAIFATSAIWEAIESELEL 405
K FVA N K NG + ++ N + V++ ++ + ++S+
Sbjct: 4 KYFVAA-NWKCNGTLESIKSLTNSFNNLDFDPSKLDVVVFPVSVHYDHTR-KLLQSKFST 61
>2dzd_A Pyruvate carboxylase; biotin carboxylase, ligase; 2.40A
{Geobacillus thermodenitrificans}
Length = 461
Score = 28.6 bits (65), Expect = 10.0
Identities = 14/68 (20%), Positives = 32/68 (47%), Gaps = 13/68 (19%)
Query: 9 KEILRKFNV-TIP--KGILCMNVDEAIKAAKKIGGNSW--VIKAQIHAGGRGKCGGIKLA 63
+ + IP G + +++ + A+ G + +IKA GG G+ G+++
Sbjct: 125 RHAAVNAGIPVIPGSDGPV-DGLEDVVAFAEAHG---YPIIIKAA--LGGGGR--GMRIV 176
Query: 64 QSLEQVEK 71
+S +V++
Sbjct: 177 RSKSEVKE 184
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 0.142 0.409
Gapped
Lambda K H
0.267 0.0461 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 15,149,413
Number of extensions: 987983
Number of successful extensions: 2480
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2381
Number of HSP's successfully gapped: 93
Length of query: 974
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 871
Effective length of database: 3,825,930
Effective search space: 3332385030
Effective search space used: 3332385030
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: 41 (21.9 bits)
S2: 62 (28.3 bits)