RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7785
(525 letters)
>gnl|CDD|177736 PLN00124, PLN00124, succinyl-CoA ligase [GDP-forming] subunit beta;
Provisional.
Length = 422
Score = 446 bits (1148), Expect = e-154
Identities = 189/378 (50%), Positives = 246/378 (65%), Gaps = 34/378 (8%)
Query: 46 KEYVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILEKMIGHKLITKQTPKTGINV 105
E V+K+QILAGGRGLG F NG K GVH + + KM+G L+TKQT G V
Sbjct: 70 GEVVVKSQILAGGRGLGTFKNGLKGGVHIVKKDK-AEELAGKMLGQILVTKQTGPAGKPV 128
Query: 106 NKVMVAKSVNITRETYFCIVQDRLHNGPVVIISPSGGTDIENVAAKTPHLVKTIPIDVHQ 165
NKV + + +++ E YF I+ DR GP++I GGT IE++A K P + +PID+ +
Sbjct: 129 NKVYLCEKMSLVNEMYFAILLDRASAGPLIIACSKGGTSIEDLAEKFPEKIIKVPIDIFK 188
Query: 166 GITESLAQDIADFLEFQGDLKAKAATEVQKLWNLFLSSLAQKIADFLEFRGDLKAKAATE 225
GIT+ A + D LA K+AD + A +
Sbjct: 189 GITDEDAAKVVD-------------------------GLAPKVAD--------RNDAIEQ 215
Query: 226 VQKLWNLFLSVDATQLEINPLVETDEREVISVDAKINFDDNAEFRQKNIFSQNEVSESDP 285
V+KL+ LF D T +EINPL ET + ++++ DAK+NFDDNA FRQK IF+ + S+ DP
Sbjct: 216 VKKLYKLFCKCDCTMVEINPLAETADGQLVAADAKLNFDDNAAFRQKEIFALRDTSQEDP 275
Query: 286 REVDASKYNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHGGEPANFLDVGGGVNEESIIQ 345
REV A+K +LNY+G+DG IGC+VNGAGLAMATMDIIKLHGG PANFLDVGG +E+ +++
Sbjct: 276 REVAAAKADLNYIGLDGEIGCMVNGAGLAMATMDIIKLHGGSPANFLDVGGNASEQQVVE 335
Query: 346 AFRIISSDSNVKCILVNVFGGIVNCATIAKGLVNACKSFKLSIPLVVRLEGTNVQEGKRI 405
AF+I++SD VK ILVN+FGGI+ C IA G+VNA K L +PLVVRLEGTNV +GKRI
Sbjct: 336 AFKILTSDDKVKAILVNIFGGIMKCDVIASGIVNAAKQVGLKVPLVVRLEGTNVDQGKRI 395
Query: 406 LDESKLPLIFASDLDEAA 423
L ES + LI A DLD+AA
Sbjct: 396 LKESGMTLITAEDLDDAA 413
Score = 70.2 bits (172), Expect = 6e-13
Identities = 32/50 (64%), Positives = 38/50 (76%)
Query: 470 AASLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAA 519
A+ +VNA K L +PLVVRLEGTNV +GKRIL ES + LI A DLD+AA
Sbjct: 364 ASGIVNAAKQVGLKVPLVVRLEGTNVDQGKRILKESGMTLITAEDLDDAA 413
>gnl|CDD|234813 PRK00696, sucC, succinyl-CoA synthetase subunit beta; Provisional.
Length = 388
Score = 442 bits (1140), Expect = e-153
Identities = 175/398 (43%), Positives = 234/398 (58%), Gaps = 43/398 (10%)
Query: 31 EDARTATNILKDLNFKEYVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILEKMIG 90
E+A A ++L +V+KAQ+ AGGRG GV + ++ ++++G
Sbjct: 29 EEAVEAA---EELGGGVWVVKAQVHAGGRGKA-------GGVKLAKSPEEAREFAKQILG 78
Query: 91 HKLITKQTPKTGINVNKVMVAKSVNITRETYFCIVQDRLHNGPVVIISPSGGTDIENVAA 150
L+T QT G VNKV+V + +I +E Y IV DR V + S GG DIE VA
Sbjct: 79 MTLVTHQTGPKGQPVNKVLVEEGADIAKEYYLSIVLDRATRRVVFMASTEGGMDIEEVAE 138
Query: 151 KTPHLVKTIPIDVHQGITESLAQDIADFLEFQGDLKAKAATEVQKLWNLFLSSLAQKIAD 210
+TP + + ID G+ FQ A++IA
Sbjct: 139 ETPEKIHKVAIDPLTGLQP-----------FQ----------------------AREIAF 165
Query: 211 FLEFRGDLKAKAATEVQKLWNLFLSVDATQLEINPLVETDEREVISVDAKINFDDNAEFR 270
L G+ + A + L+ F+ DA+ +EINPLV T + ++I++DAKINFDDNA FR
Sbjct: 166 KLGLPGEQVKQFAKILMGLYKAFVEKDASLVEINPLVVTKDGDLIALDAKINFDDNALFR 225
Query: 271 QKNIFSQNEVSESDPREVDASKYNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHGGEPAN 330
++ ++SE DP E +ASKY LNYV +DGNIGC+VNGAGLAMATMDIIKL+GGEPAN
Sbjct: 226 HPDLAELRDLSEEDPLEAEASKYGLNYVKLDGNIGCMVNGAGLAMATMDIIKLYGGEPAN 285
Query: 331 FLDVGGGVNEESIIQAFRIISSDSNVKCILVNVFGGIVNCATIAKGLVNACKSFKLSIPL 390
FLDVGGG E + +AF+II SD NVK ILVN+FGGI C IA+G++ A K +++PL
Sbjct: 286 FLDVGGGATAERVAEAFKIILSDPNVKAILVNIFGGITRCDVIAEGIIAAVKEVGVTVPL 345
Query: 391 VVRLEGTNVQEGKRILDESKLPLIFASDLDEAASLVNA 428
VVRLEGTNV+ GK+IL ES L +I A LD+AA
Sbjct: 346 VVRLEGTNVELGKKILAESGLNIIAADTLDDAAQKAVE 383
Score = 76.3 bits (189), Expect = 6e-15
Identities = 28/53 (52%), Positives = 37/53 (69%), Gaps = 1/53 (1%)
Query: 468 DEAAS-LVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAA 519
D A ++ A K +++PLVVRLEGTNV+ GK+IL ES L +I A LD+AA
Sbjct: 326 DVIAEGIIAAVKEVGVTVPLVVRLEGTNVELGKKILAESGLNIIAADTLDDAA 378
>gnl|CDD|223123 COG0045, SucC, Succinyl-CoA synthetase, beta subunit [Energy
production and conversion].
Length = 387
Score = 389 bits (1001), Expect = e-132
Identities = 176/395 (44%), Positives = 237/395 (60%), Gaps = 48/395 (12%)
Query: 31 EDARTATNILKDLNFKEYVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILEKMIG 90
E+A K+L V+KAQ+ AGGRG GV + ++ E+++G
Sbjct: 29 EEAEE---AAKELGGGPVVVKAQVHAGGRGKA-------GGVKLAKSPEEAKEAAEEILG 78
Query: 91 HKLITKQTPKTGINVNKVMVAKSVNIT-RETYFCIVQDRLHNGPVVIISPSGGTDIENVA 149
QT G VNKV+V ++V+I +E Y IV DR PV++ S GG DIE VA
Sbjct: 79 K---NYQTDIKGEPVNKVLVEEAVDIIKKEYYLSIVLDRSSRRPVLMASTEGGMDIEEVA 135
Query: 150 AKTPHLVKTIPIDVHQGITESLAQDIADFLEFQGDLKAKAATEVQKLWNLFLSSLAQKIA 209
KTP + + +D G+ A+++A L +G+L +++A
Sbjct: 136 EKTPEKIVKVSVDPLTGLRPYQARELAFKLGLEGEL-------------------VKQVA 176
Query: 210 DFLEFRGDLKAKAATEVQKLWNLFLSVDATQLEINPLVET-DEREVISVDAKINFDDNAE 268
D + +KL+ LF+ DAT +EINPLV T D +V+++DAKI DDNA
Sbjct: 177 DII--------------KKLYKLFVEKDATLVEINPLVVTPDGGDVLALDAKITLDDNAL 222
Query: 269 FRQKNIFSQNEVSESDPREVDASKYNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHGGEP 328
FR ++ + SE DPRE +AS Y LNYV +DGNIGC+VNGAGLAMATMDI+KL+GG+P
Sbjct: 223 FRHPDLAELRDESEEDPREAEASGYGLNYVELDGNIGCIVNGAGLAMATMDIVKLYGGKP 282
Query: 329 ANFLDVGGGVNEESIIQAFRIISSDSNVKCILVNVFGGIVNCATIAKGLVNACKSFKLSI 388
ANFLDVGGG E + +AF++I SD NVK I VN+FGGI C +A+G++ A K +++
Sbjct: 283 ANFLDVGGGATAERVKEAFKLILSDPNVKAIFVNIFGGITRCDEVAEGIIAALKEVGVNV 342
Query: 389 PLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAA 423
PLVVRLEGTNV+EGKRIL ES L +I A DLDEAA
Sbjct: 343 PLVVRLEGTNVEEGKRILAESGLNIIAADDLDEAA 377
Score = 70.3 bits (173), Expect = 5e-13
Identities = 33/54 (61%), Positives = 40/54 (74%), Gaps = 1/54 (1%)
Query: 468 DEAAS-LVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAAN 520
DE A ++ A K +++PLVVRLEGTNV+EGKRIL ES L +I A DLDEAA
Sbjct: 325 DEVAEGIIAALKEVGVNVPLVVRLEGTNVEEGKRILAESGLNIIAADDLDEAAE 378
>gnl|CDD|233234 TIGR01016, sucCoAbeta, succinyl-CoA synthetase, beta subunit. This
model is designated subfamily because it does not
discriminate the ADP-forming enzyme ((EC 6.2.1.5) from
the GDP_forming (EC 6.2.1.4) enzyme. The N-terminal half
is described by the CoA-ligases model (pfam00549). The
C-terminal half is described by the ATP-grasp model
(pfam02222). This family contains a split seen both in a
maximum parsimony tree (which ignores gaps) and in the
gap pattern near position 85 of the seed alignment.
Eukaryotic and most bacterial sequences are longer and
contain a region similar to TXQTXXXG. Sequences from
Deinococcus radiodurans, Mycobacterium tuberculosis,
Streptomyces coelicolor, and the Archaea are 6 amino
acids shorter in that region and contain a motif
resembling [KR]G [Energy metabolism, TCA cycle].
Length = 386
Score = 373 bits (959), Expect = e-126
Identities = 173/409 (42%), Positives = 241/409 (58%), Gaps = 45/409 (11%)
Query: 18 PVSTVHSTDKVCLEDARTATNILKDLNFKEYVIKAQILAGGRGLGHFDNGFKSGVHFTNN 77
PV + V E+A I L V+KAQ+ AGGRG G GV +
Sbjct: 18 PVPRGYVATSV--EEAEE---IAAKLGAGPVVVKAQVHAGGRG----KAG---GVKVAKS 65
Query: 78 VQDIPPILEKMIGHKLITKQTPKTGINVNKVMVAKSVNITRETYFCIVQDRLHNGPVVII 137
++ EK++G +L+T QT G VNK+++ ++ +I +E Y IV DR PV++
Sbjct: 66 KEEARAAAEKLLGKELVTNQTDPLGQPVNKILIEEATDIDKEYYLSIVIDRSARCPVIMA 125
Query: 138 SPSGGTDIENVAAKTPHLVKTIPIDVHQGITESLAQDIADFLEFQGDLKAKAATEVQKLW 197
S GG DIE VA K+P + ID G L +Q
Sbjct: 126 STEGGVDIEEVAEKSPEKIIKYAIDPLTG-----------LLPYQ--------------- 159
Query: 198 NLFLSSLAQKIADFLEFRGDLKAKAATEVQKLWNLFLSVDATQLEINPLVETDEREVISV 257
A++IA L G+L + A ++KL+ +FL DA+ +EINPLV T + +I++
Sbjct: 160 -------AREIAKKLGLEGELVKQVADIIKKLYQIFLEYDASLVEINPLVITKDGNLIAL 212
Query: 258 DAKINFDDNAEFRQKNIFSQNEVSESDPREVDASKYNLNYVGMDGNIGCLVNGAGLAMAT 317
DAK+ DDNA FR ++ + S+ DPREV A ++ LNYV +DGNIGC+VNGAGLAMAT
Sbjct: 213 DAKLTIDDNALFRHPDLEEMRDYSQEDPREVLAKQWGLNYVALDGNIGCMVNGAGLAMAT 272
Query: 318 MDIIKLHGGEPANFLDVGGGVNEESIIQAFRIISSDSNVKCILVNVFGGIVNCATIAKGL 377
MDIIKL+GGEPANFLDVGGG + E + +A +++ SD +VK + +N+FGGI C +AKGL
Sbjct: 273 MDIIKLYGGEPANFLDVGGGASAERVREALKLVLSDKSVKVVFINIFGGITRCDLVAKGL 332
Query: 378 VNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAASLV 426
V A K +++P+VVRLEGTNV+EGK+IL ES L +IFA+ ++EAA
Sbjct: 333 VEALKEVGVNVPVVVRLEGTNVEEGKKILAESGLNIIFATSMEEAAEKA 381
Score = 65.5 bits (160), Expect = 2e-11
Identities = 30/56 (53%), Positives = 40/56 (71%), Gaps = 1/56 (1%)
Query: 466 DLDEAAS-LVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAAN 520
D A LV A K +++P+VVRLEGTNV+EGK+IL ES L +IFA+ ++EAA
Sbjct: 324 RCDLVAKGLVEALKEVGVNVPVVVRLEGTNVEEGKKILAESGLNIIFATSMEEAAE 379
>gnl|CDD|237594 PRK14046, PRK14046, malate--CoA ligase subunit beta; Provisional.
Length = 392
Score = 335 bits (860), Expect = e-111
Identities = 163/387 (42%), Positives = 222/387 (57%), Gaps = 41/387 (10%)
Query: 48 YVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILEKMIGHKLITKQTPKTGINVNK 107
+V+KAQI +G RG G+ ++ E ++G KL+T QT G V +
Sbjct: 43 WVVKAQIHSGARGKA-------GGIKLCRTYNEVRDAAEDLLGKKLVTHQTGPEGKPVQR 95
Query: 108 VMVAKSVNITRETYFCIVQDRLHNGPVVIISPSGGTDIENVAAKTPHLVKTIPIDVHQGI 167
V V + I RE Y V DR VI S GG +IE +AAK P + + ++ G+
Sbjct: 96 VYVETADPIERELYLGFVLDRKSERVRVIASARGGMEIEEIAAKEPEAIIQVVVEPAVGL 155
Query: 168 TESLAQDIADFLEFQGDLKAKAATEVQKLWNLFLSSLAQKIADFLEFRGDLKAKAATEVQ 227
+ FQ A++IA L ++A +
Sbjct: 156 QQ-----------FQ----------------------AREIAFGLGLDIKQVSRAVKTIM 182
Query: 228 KLWNLFLSVDATQLEINPLVETDEREVISVDAKINFDDNAEFRQKNIFSQNEVSESDPRE 287
+ F +DAT LEINPLV T + V+++DAK++FDDNA FR+ NI + S+ DPRE
Sbjct: 183 GCYRAFRDLDATMLEINPLVVTKDDRVLALDAKMSFDDNALFRRPNIAEMRDPSQEDPRE 242
Query: 288 VDASKYNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHGGEPANFLDVGGGVNEESIIQAF 347
A+++ L+YVG+DG+IGC+VNGAGLAMATMD+IKL GGEPANFLDVGGG + E + +AF
Sbjct: 243 AQAAEHGLSYVGLDGDIGCIVNGAGLAMATMDMIKLAGGEPANFLDVGGGASPERVAKAF 302
Query: 348 RIISSDSNVKCILVNVFGGIVNCATIAKGLVNACKSFKLSIPLVVRLEGTNVQEGKRILD 407
R++ SD NVK ILVN+F GI C +A+G+V A + + +PLVVRL GTNV+EG++IL
Sbjct: 303 RLVLSDRNVKAILVNIFAGINRCDWVAEGVVQAAREVGIDVPLVVRLAGTNVEEGRKILA 362
Query: 408 ESKLPLIFASDLDEAA-SLVNACKSFK 433
ES LP+I A L EAA V A K K
Sbjct: 363 ESGLPIITADTLAEAAEKAVEAWKGAK 389
Score = 64.7 bits (158), Expect = 3e-11
Identities = 27/50 (54%), Positives = 35/50 (70%)
Query: 470 AASLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEAA 519
A +V A + + +PLVVRL GTNV+EG++IL ES LP+I A L EAA
Sbjct: 329 AEGVVQAAREVGIDVPLVVRLAGTNVEEGRKILAESGLPIITADTLAEAA 378
>gnl|CDD|219843 pfam08442, ATP-grasp_2, ATP-grasp domain.
Length = 202
Score = 190 bits (486), Expect = 7e-58
Identities = 80/217 (36%), Positives = 108/217 (49%), Gaps = 40/217 (18%)
Query: 32 DARTATNILKDLNFKEYVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILEKMIGH 91
A K L K +V+KAQ+LAGGRG GV + ++ ++M+G
Sbjct: 26 SPEEAEEAAKKLGGKVWVVKAQVLAGGRGKA-------GGVKLAKSPEEAKEAAKEMLGK 78
Query: 92 KLITKQTPKTGINVNKVMVAKSVNITRETYFCIVQDRLHNGPVVIISPSGGTDIENVAAK 151
L+TKQT G VNKV+V ++V+I RE Y IV DR GPV+I S GG DIE VAAK
Sbjct: 79 NLVTKQTGPEGKPVNKVLVEEAVDIAREYYLSIVLDRASRGPVLIASTEGGVDIEEVAAK 138
Query: 152 TPHLVKTIPIDVHQGITESLAQDIADFLEFQGDLKAKAATEVQKLWNLFLSSLAQKIADF 211
P + +PID G+T A++IA L +G+L +AA ++KL+ LF+
Sbjct: 139 NPEAIHKVPIDPATGLTPYQAREIAFKLGLEGELVKQAADIIKKLYKLFVER-------- 190
Query: 212 LEFRGDLKAKAATEVQKLWNLFLSVDATQLEINPLVE 248
DAT +EINPLVE
Sbjct: 191 -------------------------DATLVEINPLVE 202
>gnl|CDD|215988 pfam00549, Ligase_CoA, CoA-ligase. This family includes the CoA
ligases Succinyl-CoA synthetase alpha and beta chains,
malate CoA ligase and ATP-citrate lyase. Some members of
the family utilise ATP others use GTP.
Length = 128
Score = 123 bits (312), Expect = 1e-33
Identities = 44/127 (34%), Positives = 68/127 (53%), Gaps = 7/127 (5%)
Query: 307 LVNGAGLAMATMDIIKLHGGEPANFLDVGGGV-NEESIIQAFRIISSDSNVKCILVNVFG 365
LVNG LAM MD+IKL GG P NF+D+GG + I A ++ ++D VK IL+++
Sbjct: 1 LVNGGTLAMEAMDLIKLAGGGPHNFIDLGGDAFTPTTRIDALKLEAADPEVKVILLDIVL 60
Query: 366 GIVNCATIAKGLVNACKSFK-LSIPLVVRLEGTNV-----QEGKRILDESKLPLIFASDL 419
G C A GL+ A K + +P+V R+ GT +E + L ES + + +++
Sbjct: 61 GYGACEDPAGGLLKAIKEARARELPVVARVCGTEADPQGREEQAKALAESGVLIASSNNQ 120
Query: 420 DEAASLV 426
A+
Sbjct: 121 ALRAAGA 127
Score = 38.0 bits (89), Expect = 0.002
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 6/58 (10%)
Query: 468 DEAASLVNACKSFK-LSIPLVVRLEGTNV-----QEGKRILDESKLPLIFASDLDEAA 519
D A L+ A K + +P+V R+ GT +E + L ES + + +++ A
Sbjct: 67 DPAGGLLKAIKEARARELPVVARVCGTEADPQGREEQAKALAESGVLIASSNNQALRA 124
>gnl|CDD|131764 TIGR02717, AcCoA-syn-alpha, acetyl coenzyme A synthetase (ADP
forming), alpha domain. Although technically
reversible, it is believed that this group of
ADP-dependent acetyl-CoA synthetases (ACS) act in the
direction of acetate and ATP production in the organisms
in which it has been characterized. In most species this
protein exists as a fused alpha-beta domain polypeptide.
In Pyrococcus and related species, however the domains
exist as separate polypeptides. This model represents
the alpha (N-terminal) domain. In Pyrococcus and related
species there appears to have been the development of a
paralogous family such that four other proteins are
close relatives. In reference , one of these (along with
its beta-domain partner) was characterized as ACS-II
showing specificity for phenylacetyl-CoA. This model has
been constructed to exclude these non-ACS-I paralogs.
This may result in new, authentic ACS-I sequences
falling below the trusted cutoff.
Length = 447
Score = 42.3 bits (100), Expect = 5e-04
Identities = 29/133 (21%), Positives = 52/133 (39%), Gaps = 24/133 (18%)
Query: 303 NIGCLVNGAGLAMATMDIIKLHGGEPANF---------------------LDVGGGVNEE 341
+ + N G + D + +G E A +DV G E
Sbjct: 297 RVAIITNAGGPGVIATDACEENGLELAELSEATKNKLRNILPPEASIKNPVDVLGDATPE 356
Query: 342 SIIQAFRIISSDSNVK-CILVNVFGGIVNCATIAKGLVNACKSFKLSIPLVVR-LEGTNV 399
+A + ++ D NV ++V + + +AKG++ K P+V + G +V
Sbjct: 357 RYAKALKTVAEDENVDGVVVVLTPTAMTDPEEVAKGIIEGAKKSN-EKPVVAGFMGGKSV 415
Query: 400 QEGKRILDESKLP 412
KRIL+E+ +P
Sbjct: 416 DPAKRILEENGIP 428
>gnl|CDD|177879 PLN02235, PLN02235, ATP citrate (pro-S)-lyase.
Length = 423
Score = 40.5 bits (95), Expect = 0.002
Identities = 78/317 (24%), Positives = 119/317 (37%), Gaps = 81/317 (25%)
Query: 119 ETYFCIVQDRLHNGPVVIISPSGGTDIENVAAKTPHLVKTIPIDVHQGIT-ESLAQDIAD 177
E Y IV DRL G + S GG +IE K VKTI + +T E A IA
Sbjct: 116 EFYLSIVSDRL--GCSISFSECGGIEIEENWDK----VKTIFLPTEAPLTSEICAPLIAT 169
Query: 178 F-LEFQGDLKAKAATEVQKLWNLFLSSLAQKIADFLEFRGDLKAKAATEVQKLWNLFLSV 236
LE +G KI +F+ + ++ +F +
Sbjct: 170 LPLEIRG-----------------------KIEEFI--------------KGVFAVFQDL 192
Query: 237 DATQLEINPLVETDEREVISVDAKINFDDNAEFRQKN-------------IFSQNEVSES 283
D T LE+NP D E +D + DD A F+ + S E
Sbjct: 193 DFTFLEMNPFTLVDG-EPYPLDMRGELDDTAAFKNFKKWGNIEFPLPFGRVMSPTESFIH 251
Query: 284 DPREVDASKYNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHG--GEPANFLDVGGGVNEE 341
E ++ + G I +V G G ++ D + G E N+ + G NEE
Sbjct: 252 GLDEKTSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEE 311
Query: 342 SIIQAFRII------SSDSNVKCILVNVFGGIVNCATIA---KGLVNA-------CKSFK 385
++Q R++ + D + +L+ GGI N +A G++ A K+ +
Sbjct: 312 EVLQYARVVIDCATANPDGRKRALLIG--GGIANFTDVAATFNGIIRALREKESKLKAAR 369
Query: 386 LSIPLVVRLEGTNVQEG 402
+ I VR G N Q+G
Sbjct: 370 MHI--FVRRGGPNYQKG 384
>gnl|CDD|223972 COG1042, COG1042, Acyl-CoA synthetase (NDP forming) [Energy
production and conversion].
Length = 598
Score = 36.2 bits (84), Expect = 0.039
Identities = 44/196 (22%), Positives = 80/196 (40%), Gaps = 23/196 (11%)
Query: 312 GLAMATMD---IIKLHGGEPA-----NFLDVGGGVNEESIIQAFRIISSDSNVKCILV-N 362
GL +A + I KL P N +D+ G + E + I+ D NV +LV
Sbjct: 323 GLKLAELSEETIEKLRSRLPPHASVKNPVDLTGDADAERYKKTLEILLRDENVDALLVIV 382
Query: 363 VFGGIVNCATIAKGLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPLIFASDLDEA 422
+ + A+ ++ A + +V + G + ++ +R+L+E+ +P +
Sbjct: 383 LPPASADPEETAEAIIRATAKKRGKPVVVSSMGGESSEKARRLLEEAGIPTYPTPE-RAV 441
Query: 423 ASLVNACKSFKLSIPLVVRLE-----GTNVQEG--KRILDESKLPLI--FASDLDEAASL 473
+L + + L GT + E K +L+ +P+ AS LDEA
Sbjct: 442 KALSALARYRRWLKKLRETPVFEGGGGTTLDEPEAKELLEAYGIPVPATIASTLDEA--- 498
Query: 474 VNACKSF-KLSIPLVV 488
V+ +S KL P +
Sbjct: 499 VHIAESIGKLRSPDID 514
>gnl|CDD|235235 PRK04165, PRK04165, acetyl-CoA decarbonylase/synthase complex
subunit gamma; Provisional.
Length = 450
Score = 34.8 bits (81), Expect = 0.11
Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 5/79 (6%)
Query: 403 KRILDESKLPLIFAS-DLDEAASLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESKLPL 461
K++ + + LPLI S D + + K PL+ N +E + E PL
Sbjct: 148 KKVAETTDLPLILCSEDPAVLKAALEVVADRK---PLLYAATKENYEEMAELAKEYNCPL 204
Query: 462 -IFASDLDEAASLVNACKS 479
+ A +L+E LV ++
Sbjct: 205 VVKAPNLEELKELVEKLQA 223
>gnl|CDD|131925 TIGR02878, spore_ypjB, sporulation protein YpjB. Members of this
protein, YpjB, family are restricted to a subset of
endospore-forming bacteria, including Bacillus species
but not CLostridium or some others. In Bacillus
subtilis, ypjB was found to be part of the sigma-E
regulon, where sigma-E is a sporulation sigma factor
that regulates expression in the mother cell
compartment. Null mutants of ypjB show a sporulation
defect. This protein family is not, however, a part of
the endospore formation minimal gene set [Cellular
processes, Sporulation and germination].
Length = 233
Score = 32.1 bits (73), Expect = 0.56
Identities = 33/165 (20%), Positives = 61/165 (36%), Gaps = 28/165 (16%)
Query: 144 DIENVAAKTPHLVKTIPI---DVHQGITE---SLAQDIADFLEFQGDLKAKAATEVQKLW 197
E T ++TI + Q +T S + I F+ + A + Q LW
Sbjct: 39 GKEKDPMLTMDQLRTITLTYERAVQALTATDMSDDEKIRAVTAFRLAVDAIVSRS-QPLW 97
Query: 198 NLFLSSLAQKIADFLEFRGDLKAKAATEVQKLWNLFLSVDATQLEINPLVETDEREVISV 257
S + F E + + + Q+ N FLS+ + + ++ E +V V
Sbjct: 98 ---GSLEKPVMEAFTELEKAAQKEDSQAFQEKLNEFLSL-YDLIYPSLTIDVPEDQVQRV 153
Query: 258 DAKINFDDNAEFRQ-----------------KNIFSQNEVSESDP 285
D+ +++ +N F+Q K +F + E+DP
Sbjct: 154 DSHLSYLENFRFQQRSEDEKEEQLSLMRGDLKALFDGVKEDEADP 198
>gnl|CDD|173844 cd01155, ACAD_FadE2, Acyl-CoA dehydrogenases similar to fadE2.
FadE2-like Acyl-CoA dehydrogenase (ACAD). Acyl-CoA
dehydrogenases (ACAD) catalyze the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. The reduced form of ACAD is
reoxidized in the oxidative half-reaction by
electron-transferring flavoprotein (ETF), from which the
electrons are transferred to the mitochondrial
respiratory chain coupled with ATP synthesis. The ACAD
family includes the eukaryotic beta-oxidation, as well
as amino acid catabolism enzymes. These enzymes share
high sequence similarity, but differ in their substrate
specificities. ACAD's are generally homotetramers and
have an active site glutamate at a conserved position.
Length = 394
Score = 32.0 bits (73), Expect = 0.76
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 7/48 (14%)
Query: 217 DLKAKAATEVQKLWNLFLSVDA-----TQLEINPLVETDEREVISVDA 259
LKAKA + + LWNLFL + T LE L E R + +
Sbjct: 45 KLKAKA--KAEGLWNLFLPEVSGLSGLTNLEYAYLAEETGRSFFAPEV 90
>gnl|CDD|178601 PLN03033, PLN03033, 2-dehydro-3-deoxyphosphooctonate aldolase;
Provisional.
Length = 290
Score = 30.2 bits (68), Expect = 2.7
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 12/56 (21%)
Query: 403 KRILDESKLPLIFASDLDEAASLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESK 458
K I + LPL+F S D+A + KSF+ G + EG +IL++ K
Sbjct: 40 KDISTKLGLPLVFKSSFDKANR--TSSKSFR----------GPGMAEGLKILEKVK 83
Score = 30.2 bits (68), Expect = 2.7
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 12/56 (21%)
Query: 451 KRILDESKLPLIFASDLDEAASLVNACKSFKLSIPLVVRLEGTNVQEGKRILDESK 506
K I + LPL+F S D+A + KSF+ G + EG +IL++ K
Sbjct: 40 KDISTKLGLPLVFKSSFDKANR--TSSKSFR----------GPGMAEGLKILEKVK 83
>gnl|CDD|164576 CHL00201, syh, histidine-tRNA synthetase; Provisional.
Length = 430
Score = 29.1 bits (65), Expect = 7.0
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 212 LEFRGDLKAKAATEVQKL-WNLF--LSVDATQLEINPLVETDEREVISVD 258
+EF G + A+A TEV L +F L V L+IN + + ++R+ +
Sbjct: 130 IEFIGSIDARADTEVIHLAMQIFNELQVKNLILDINSIGKLEDRQSYQLK 179
>gnl|CDD|184751 PRK14571, PRK14571, D-alanyl-alanine synthetase A; Provisional.
Length = 299
Score = 28.6 bits (64), Expect = 7.9
Identities = 14/41 (34%), Positives = 20/41 (48%)
Query: 46 KEYVIKAQILAGGRGLGHFDNGFKSGVHFTNNVQDIPPILE 86
KE +KA + AG RG G D F G + + +P + E
Sbjct: 229 KETALKAFVEAGCRGFGRVDGIFSDGRFYFLEINTVPGLTE 269
>gnl|CDD|233434 TIGR01484, HAD-SF-IIB, HAD-superfamily hydrolase, subfamily IIB.
This subfamily falls within the Haloacid Dehalogenase
(HAD) superfamily of aspartate-nucleophile hydrolases.
The Class II subfamilies are characterized by a domain
that is located between the second and third conserved
catalytic motifs of the superfamily domain. The IIB
subfamily is distinguished from the IIA subfamily
(TIGR01460) by homology and the predicted secondary
structure of this domain by PSI-PRED. The IIB
subfamily's Class II domain has the following predicted
structure: Helix-Sheet-Sheet-(Helix or
Sheet)-Helix-Sheet-(variable)-Helix-Sheet-Sheet. The IIB
subfamily consists of Trehalose-6-phosphatase
(TIGR00685), plant and cyanobacterial
Sucrose-phosphatase and a closely related group of
bacterial and archaeal sequences, eukaryotic
phosphomannomutase (pfam03332), a large subfamily
("Cof-like hydrolases", TIGR00099) containing many
closely related bacterial sequences, a hypothetical
equivalog containing the E. coli YedP protein, as well
as two small clusters containing OMNI|TC0379 and
OMNI|SA2196 whose relationship to the other groups is
unclear [Unknown function, Enzymes of unknown
specificity].
Length = 204
Score = 28.1 bits (63), Expect = 8.8
Identities = 22/133 (16%), Positives = 43/133 (32%), Gaps = 11/133 (8%)
Query: 227 QKLWNLFLSVDATQLEINPLVETDEREVISVDAKINFDDNAEFRQKNIFSQNEVS-ESDP 285
+ L+ V L I + E + +S F ++ + E+ E D
Sbjct: 71 EILYIEPSDVFEEILGIKEEIG-AELKSLSEHYVGTFIEDKAIAVAIHYVGAELGQELDS 129
Query: 286 REVDASK--------YNLNYVGMDGNIGCLVNGAGLAMATMDIIKLHGGEPANFLDVGGG 337
+ + + YVG ++ L G A ++K G+ L G
Sbjct: 130 KMRERLEKIGRNDLELEAIYVG-KTDLEVLPAGVDKGSALQALLKELNGKRDEILAFGDS 188
Query: 338 VNEESIIQAFRII 350
N+E + + +
Sbjct: 189 GNDEEMFEVAGLA 201
>gnl|CDD|132925 cd07014, S49_SppA, Signal peptide peptidase A. Signal peptide
peptidase A (SppA; Peptidase S49; Protease IV): SppA is
an intramembrane enzyme found in all three domains of
life and is involved in the cleavage of signal peptides
after their removal from the precursor proteins by
signal peptidases. Unlike the eukaryotic functional
homologs that are proposed to be aspartic proteases,
site-directed mutagenesis and sequence analysis have
shown these bacterial, archaeal and thylakoid SppAs to
be ClpP-like serine proteases. The predicted active site
serine for members in this family occurs in a
transmembrane domain, cleaving peptide bonds in the
plane of the lipid bilayer. Mutagenesis studies also
suggest that the catalytic center comprises a Ser-Lys
dyad (both residues absolutely conserved within
bacteria, chloroplast and mitochondrial signal peptidase
family members) and not the usual Ser-His-Asp catalytic
triad found in the majority of serine proteases. In
addition to the carboxyl-terminal protease domain that
is conserved in all the S49 family members, the E. coli
SppA contains an amino-terminal domain (sometimes
referred to as 67K type). Others, including sohB
peptidase, protein C, protein 1510-N and archaeal signal
peptide peptidase, do not contain the amino-terminal
domain (sometimes referred to as 36K type).
Interestingly, the single membrane spanning E. coli SppA
carries out catalysis using a Ser-Lys dyad with the
serine located in the conserved carboxy-terminal
protease domain and the lysine in the non-conserved
amino-terminal domain. This family also contains
homologs that either have been found experimentally to
be without peptidase activity, or lack amino acid
residues that are believed to be essential for the
catalytic activity of peptidases.
Length = 177
Score = 28.0 bits (62), Expect = 9.9
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 328 PANFLDVGGGVNEESIIQAFRIISSDSNVKCILVNV--FGG 366
+ D G V+ ++ R D VK I++ V GG
Sbjct: 12 EESSSDTQGNVSGDTTAAQIRDARLDPKVKAIVLRVNSPGG 52
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.135 0.382
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,131,062
Number of extensions: 2556279
Number of successful extensions: 2355
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2339
Number of HSP's successfully gapped: 56
Length of query: 525
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 424
Effective length of database: 6,457,848
Effective search space: 2738127552
Effective search space used: 2738127552
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 (21.7 bits)
S2: 61 (27.3 bits)