RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7777
(294 letters)
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 253 bits (649), Expect = 2e-82
Identities = 127/315 (40%), Positives = 158/315 (50%), Gaps = 52/315 (16%)
Query: 12 PPADPTKEISGTRSEQRVKMNRNGRNLQKRSKYRQSQQPSQLNAIEAATVKLPPADPTKE 71
PPA + ++E+ P A + P
Sbjct: 124 PPAAAPAAAAAAKAEKTTPEKPKAAAPTPEPPAASKPTPPA--AAKPPEPAPAAKPPPTP 181
Query: 72 ISGT-RSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEID------MRKESNTSMPVPA 124
++ E RV M+RMRQRIA+RLK +QN AMLTTFNE D +RKE
Sbjct: 182 VARADPRETRVPMSRMRQRIAERLKASQNTCAMLTTFNECDMSALMELRKEYKDDFQKKH 241
Query: 125 PCN-GIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSGPPECKPS 183
G F+ A VKA K P V N+ Y ++ ++ S
Sbjct: 242 GVKLG-----FM--SAFVKASTIALKKMPIV---NA-YIDGDEIVYRNYVDI-------S 283
Query: 184 VAVATPKGLVVPVIRN------------------------LAIEDSDGGTFTISNGGVFG 219
VAVATP GLVVPVIRN L +ED GGTFTISNGGVFG
Sbjct: 284 VAVATPTGLVVPVIRNCENKSFAEIEKELADLAEKARNNKLTLEDMTGGTFTISNGGVFG 343
Query: 220 SLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLIDGREAVLFLRK 279
SL+GTPIINPPQSAILGMH +RPV + ++V++P+MY+ALTYDHRLIDGR+AV FL+K
Sbjct: 344 SLMGTPIINPPQSAILGMHAIKKRPVVVGNEIVIRPIMYLALTYDHRLIDGRDAVTFLKK 403
Query: 280 IKAAVEDPRIILAGL 294
IK +EDP +L L
Sbjct: 404 IKDLIEDPARMLLDL 418
Score = 34.3 bits (79), Expect = 0.066
Identities = 21/84 (25%), Positives = 35/84 (41%), Gaps = 5/84 (5%)
Query: 118 TSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTP-----NSKYRAEKKLRPGRE 172
S+ + AP +G+I + F E+G TV+ G L +I P + +K P +
Sbjct: 86 VSVDIRAPASGVITKIFAEEGDTVEVGAPLSEIDTGGAPPAAAPAAAAAAKAEKTTPEKP 145
Query: 173 LNSGPPECKPSVAVATPKGLVVPV 196
+ P P+ + TP P
Sbjct: 146 KAAAPTPEPPAASKPTPPAAAKPP 169
>gnl|CDD|235571 PRK05704, PRK05704, dihydrolipoamide succinyltransferase;
Validated.
Length = 407
Score = 201 bits (515), Expect = 2e-62
Identities = 75/133 (56%), Positives = 93/133 (69%), Gaps = 24/133 (18%)
Query: 183 SVAVATPKGLVVPVIRN------------------------LAIEDSDGGTFTISNGGVF 218
+AV TP+GLVVPV+R+ L+IE+ GGTFTI+NGGVF
Sbjct: 272 GIAVGTPRGLVVPVLRDADQLSFAEIEKKIAELAKKARDGKLSIEELTGGTFTITNGGVF 331
Query: 219 GSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLIDGREAVLFLR 278
GSL+ TPIINPPQSAILGMH ERPVA+ GQ+V++PMMY+AL+YDHR+IDG+EAV FL
Sbjct: 332 GSLMSTPIINPPQSAILGMHKIKERPVAVNGQIVIRPMMYLALSYDHRIIDGKEAVGFLV 391
Query: 279 KIKAAVEDPRIIL 291
IK +EDP +L
Sbjct: 392 TIKELLEDPERLL 404
Score = 84.9 bits (211), Expect = 1e-18
Identities = 27/55 (49%), Positives = 32/55 (58%)
Query: 58 AATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDM 112
A G R E+RV M R+R+ IA+RL EAQN AMLTTFNE+DM
Sbjct: 158 PAAPAAAAPAAAPAPLGARPEERVPMTRLRKTIAERLLEAQNTTAMLTTFNEVDM 212
Score = 38.7 bits (91), Expect = 0.002
Identities = 22/82 (26%), Positives = 32/82 (39%), Gaps = 4/82 (4%)
Query: 122 VPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSGPPECK 181
VPAP G++ E E+G TV GQ L +I + A + P + +
Sbjct: 48 VPAPAAGVLSEILAEEGDTVTVGQVLGRIDEGAAAGAAAAAAAAA----AAAAAAPAQAQ 103
Query: 182 PSVAVATPKGLVVPVIRNLAIE 203
+ A + P R LA E
Sbjct: 104 AAAAAEQSNDALSPAARKLAAE 125
>gnl|CDD|233365 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
dihydrolipoamide succinyltransferase (E2 component).
This model describes the TCA cycle 2-oxoglutarate system
E2 component, dihydrolipoamide succinyltransferase. It
is closely related to the pyruvate dehydrogenase E2
component, dihydrolipoamide acetyltransferase. The seed
for this model includes mitochondrial and Gram-negative
bacterial forms. Mycobacterial candidates are highly
derived, differ in having and extra copy of the
lipoyl-binding domain at the N-terminus. They score
below the trusted cutoff, but above the noise cutoff and
above all examples of dihydrolipoamide acetyltransferase
[Energy metabolism, TCA cycle].
Length = 403
Score = 196 bits (500), Expect = 3e-60
Identities = 80/136 (58%), Positives = 95/136 (69%), Gaps = 24/136 (17%)
Query: 183 SVAVATPKGLVVPVIRN------------------------LAIEDSDGGTFTISNGGVF 218
SVAV+T +GLVVPV+RN L +ED GGTFTI+NGGVF
Sbjct: 268 SVAVSTDRGLVVPVVRNADRMSFADIEKEIADLGKKARDGKLTLEDMTGGTFTITNGGVF 327
Query: 219 GSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLIDGREAVLFLR 278
GSL+ TPIINPPQSAILGMHG ERPVA+ GQ+ ++PMMY+AL+YDHRLIDG+EAV FL
Sbjct: 328 GSLMSTPIINPPQSAILGMHGIKERPVAVNGQIEIRPMMYLALSYDHRLIDGKEAVTFLV 387
Query: 279 KIKAAVEDPRIILAGL 294
IK +EDPR +L L
Sbjct: 388 TIKELLEDPRRLLLDL 403
Score = 80.9 bits (200), Expect = 2e-17
Identities = 39/114 (34%), Positives = 53/114 (46%), Gaps = 5/114 (4%)
Query: 6 AATVKLPPADPTKEISGTRSEQRVKMNRNGRNLQ-----KRSKYRQSQQPSQLNAIEAAT 60
AA+ P S + + +R+ + + + A +A
Sbjct: 97 AASAAAAPTAAANRPSLSPAARRLAKEHGIDLSAVPGTGVTGRVTKEDIIKKTEAPASAQ 156
Query: 61 VKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDMRK 114
P A + TR E+RVKM R+RQRIA+RLKEAQN AMLTTFNE+DM
Sbjct: 157 QPAPAAAAKAPANFTRPEERVKMTRLRQRIAERLKEAQNSTAMLTTFNEVDMSA 210
Score = 37.4 bits (87), Expect = 0.006
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 13/73 (17%)
Query: 118 TSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSGP 177
+ VP+P +G+++E ++G TV++GQ L + E+ +
Sbjct: 42 VVLEVPSPADGVLQEILFKEGDTVESGQVLAIL-------------EEGNDATAAPPAKS 88
Query: 178 PECKPSVAVATPK 190
E K A+
Sbjct: 89 GEEKEETPAASAA 101
>gnl|CDD|223582 COG0508, AceF, Pyruvate/2-oxoglutarate dehydrogenase complex,
dihydrolipoamide acyltransferase (E2) component, and
related enzymes [Energy production and conversion].
Length = 404
Score = 178 bits (454), Expect = 2e-53
Identities = 99/266 (37%), Positives = 135/266 (50%), Gaps = 48/266 (18%)
Query: 57 EAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDMRKES 116
+AA P S E+RV M+R+R+ IA+R+ E++ LT FNE+DM K
Sbjct: 154 KAAAAAAPAPAAAAPASAAGEEERVPMSRIRKAIAERMVESKQTIPHLTLFNEVDMTK-- 211
Query: 117 NTSMPVPAPCNGIIEERFVEDGA------TVKAGQQLFKIKPTVCTPNSKYR-AEKKLRP 169
+ A + EE + VKA + K P V N+ +++
Sbjct: 212 -----LMALRKKLKEEFEKKGVKLTFLSFLVKAVVKALKKFPEV---NASIDGDGEEIVY 263
Query: 170 GRELNSGPPECKPSVAVATPKGLVVPVIRN------------------------LAIEDS 205
+AV TP+GLVVPVIR+ L E+
Sbjct: 264 -------HKYVNIGIAVDTPRGLVVPVIRDADKKSLAEIAKEIKDLAKKARDGKLTPEEM 316
Query: 206 DGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDH 265
GGTFTISN G+FGSL+ TPIINPPQ AILG+ ERPV + G++VV+PMMY++L+YDH
Sbjct: 317 QGGTFTISNLGMFGSLMFTPIINPPQVAILGVGAIEERPVVVGGEIVVRPMMYLSLSYDH 376
Query: 266 RLIDGREAVLFLRKIKAAVEDPRIIL 291
R+IDG EA FL +K +EDP +L
Sbjct: 377 RVIDGAEAARFLVALKELLEDPERLL 402
Score = 37.4 bits (87), Expect = 0.008
Identities = 24/103 (23%), Positives = 40/103 (38%), Gaps = 10/103 (9%)
Query: 118 TSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSGP 177
+M VPAP G++ + VE+G TV G + +I+ + A + +
Sbjct: 44 ATMEVPAPDAGVLAKILVEEGDTVPVGAVIARIEEEGADAPAAAEAPPEPAA----AAPA 99
Query: 178 PECKPSVAVATPKGLVVPVIRNLAIEDSDGGTFTISNGGVFGS 220
+ + A + L P +R LA E I V G+
Sbjct: 100 SAPATAASAAAGRVLASPAVRRLARE------AGIDLSKVKGT 136
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 169 bits (430), Expect = 2e-49
Identities = 121/322 (37%), Positives = 167/322 (51%), Gaps = 65/322 (20%)
Query: 5 EAATVKLPPADPTKEISGTR----SEQRVKMNRNGRNLQKRSKYRQSQQPSQLNAIEAAT 60
E A ++ P+ E + + +E + K + ++ K S P + +A E
Sbjct: 169 EDAASQVTPSQKIPETTDPKPSPPAEDKQKPKVESAPVAEKPKAPSSPPPPKQSAKEP-- 226
Query: 61 VKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDMRKESNTSM 120
+LPP + E+RV M R+R+R+A RLK++QN A+LTTFNE+DM +N
Sbjct: 227 -QLPPKE---------RERRVPMTRLRKRVATRLKDSQNTFALLTTFNEVDM---TNLMK 273
Query: 121 PVPAPCNGIIEERFVEDG-------ATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGREL 173
+ E+ V+ G A V A Q + + + YR +
Sbjct: 274 LRSQYKDAFYEKHGVKLGLMSGFIKAAVSALQHQPVVNAVIDGDDIIYRDYVDI------ 327
Query: 174 NSGPPECKPSVAVATPKGLVVPVIRN------------------------LAIEDSDGGT 209
S+AV T KGLVVPVIR ++I++ GG+
Sbjct: 328 ---------SIAVGTSKGLVVPVIRGADKMNFAEIEKTINGLAKKANEGTISIDEMAGGS 378
Query: 210 FTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLID 269
FT+SNGGV+GSL+ TPIINPPQSAILGMH RP+ + G VV +PMMYVALTYDHRLID
Sbjct: 379 FTVSNGGVYGSLISTPIINPPQSAILGMHSIVSRPMVVGGSVVPRPMMYVALTYDHRLID 438
Query: 270 GREAVLFLRKIKAAVEDPRIIL 291
GREAV FLR++K VEDP+ +L
Sbjct: 439 GREAVYFLRRVKDVVEDPQRLL 460
>gnl|CDD|215782 pfam00198, 2-oxoacid_dh, 2-oxoacid dehydrogenases acyltransferase
(catalytic domain). These proteins contain one to three
copies of a lipoyl binding domain followed by the
catalytic domain.
Length = 212
Score = 158 bits (402), Expect = 9e-48
Identities = 63/158 (39%), Positives = 91/158 (57%), Gaps = 31/158 (19%)
Query: 158 NSKYRAEKKLRPGRELNSGPPECKPSVAVATPKGLVVPVIRN------------------ 199
N+ + + ++ + +N G +AVATP GL+VPVIRN
Sbjct: 61 NASWDGDAEIVYKKYVNIG-------IAVATPDGLIVPVIRNADRKSLLEIAKEIKDLAE 113
Query: 200 ------LAIEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVV 253
L ED GGTFTISN G+FG TPIINPPQ AILG+ +RPV + G++V+
Sbjct: 114 RARDGKLKPEDLQGGTFTISNLGMFGVTFFTPIINPPQVAILGVGAIRKRPVVVDGEIVI 173
Query: 254 KPMMYVALTYDHRLIDGREAVLFLRKIKAAVEDPRIIL 291
+ +M ++L++DHR+IDG EA FL +K +E+P ++L
Sbjct: 174 RKVMPLSLSFDHRVIDGAEAARFLNDLKELLENPELLL 211
>gnl|CDD|237001 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase
subunit E2; Reviewed.
Length = 411
Score = 154 bits (391), Expect = 4e-44
Identities = 82/283 (28%), Positives = 127/283 (44%), Gaps = 78/283 (27%)
Query: 53 LNAIEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEA-QNVNAMLTTFNEID 111
A A A + E+RV ++ MR+ IA+R+ E+ + + T +E+D
Sbjct: 163 AAAAAPAAAAAAAAAAAPPAAAAEGEERVPLSGMRKAIAKRMVESKREI-PHFTLTDEVD 221
Query: 112 MRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQL--FKIKPTVCTP------------ 157
+ A + +QL +K TV T
Sbjct: 222 V-------------------------TALLALRKQLKAIGVKLTV-TDFLIKAVALALKK 255
Query: 158 ----NSKYRAEKKLRPGRELNSGPPECKPSVAVATPKGLVVPVIRN-------------- 199
N+ + + + +N G +AVAT GL+VPVIR+
Sbjct: 256 FPELNASWDDDAIVLKKY-VNIG-------IAVATDGGLIVPVIRDADKKSLFELAREIK 307
Query: 200 ----------LAIEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKG 249
L E+ GGTFTISN G+FG TPIINPP+ AILG+ ERPV + G
Sbjct: 308 DLAEKAREGKLKPEELQGGTFTISNLGMFGGDYFTPIINPPEVAILGVGAIVERPVVVDG 367
Query: 250 QVVVKPMMYVALTYDHRLIDGREAVLFLRKIKAAVEDPRIILA 292
++VV+ +M ++L++DHR+IDG +A FL+ +K +E+P ++L
Sbjct: 368 EIVVRKVMPLSLSFDHRVIDGADAARFLKALKELLENPALLLL 410
Score = 32.5 bits (75), Expect = 0.28
Identities = 17/90 (18%), Positives = 26/90 (28%), Gaps = 8/90 (8%)
Query: 120 MPVPAPCNGIIEERFVEDGATVKAGQQLFKI--------KPTVCTPNSKYRAEKKLRPGR 171
+ +P+P G + + VE+G V G + I E
Sbjct: 46 VEIPSPVAGTVAKLLVEEGDVVPVGSVIAVIEEEGEAEAAAAAEAAPEAPAPEPAPAAAA 105
Query: 172 ELNSGPPECKPSVAVATPKGLVVPVIRNLA 201
+ P A A P +R LA
Sbjct: 106 AAAAAPAAAAAPAAPAAAAAKASPAVRKLA 135
>gnl|CDD|237000 PRK11855, PRK11855, dihydrolipoamide acetyltransferase; Reviewed.
Length = 547
Score = 118 bits (298), Expect = 5e-30
Identities = 80/312 (25%), Positives = 121/312 (38%), Gaps = 86/312 (27%)
Query: 33 RNGR-------NLQKRSKYRQSQQPSQLNAIEAATVKLPPADPTKEISGTRSEQRVKMNR 85
+ GR K + + + A + L P P + S + ++R
Sbjct: 268 KKGRITKEDVQAFVKGAMSAAAAAAAAAAAAGGGGLGLLPW-PKVDFSKFGEIETKPLSR 326
Query: 86 MRQRIAQRLKEAQNVNAMLTTFNEIDM------RKESN----------TSMPVPAPCNGI 129
+++ A L + +T F+E D+ RK+ T +P
Sbjct: 327 IKKISAANLHRSWVTIPHVTQFDEADITDLEALRKQLKKEAEKAGVKLTMLP-------- 378
Query: 130 IEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGREL------NSGPPECKPS 183
F +KA K P N+ + G EL N G
Sbjct: 379 ----FF-----IKAVVAALKEFPVF---NASLDED-----GDELTYKKYFNIG------- 414
Query: 184 VAVATPKGLVVPVIRN--------LAIEDSD----------------GGTFTISNGGVFG 219
AV TP GLVVPVI++ +A E ++ GG FTIS+ G G
Sbjct: 415 FAVDTPNGLVVPVIKDVDKKSLLEIAREIAELAKKARDGKLKPDDMQGGCFTISSLGGIG 474
Query: 220 SLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLIDGREAVLFLRK 279
TPIIN P+ AILG+ + +PV + V + M+ ++L+YDHR+IDG A F
Sbjct: 475 GTAFTPIINAPEVAILGVGKSQMKPVWDGKEFVPRLMLPLSLSYDHRVIDGATAARFTNY 534
Query: 280 IKAAVEDPRIIL 291
+K + DPR +L
Sbjct: 535 LKQLLADPRRML 546
Score = 34.4 bits (80), Expect = 0.058
Identities = 22/95 (23%), Positives = 34/95 (35%), Gaps = 10/95 (10%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYR-------AEKKLRPGR 171
+M +P+P G+++E V+ G V G L I+ P + A P
Sbjct: 161 TMEIPSPVAGVVKEIKVKVGDKVSVGSLLVVIEVAAAAPAAAAAPAAAAPAAAAAAAPAP 220
Query: 172 ELNSGPPECKPSVAVATPKG---LVVPVIRNLAIE 203
+ + A A G P +R LA E
Sbjct: 221 APAAAAAPAAAAPAAAAAPGKAPHASPAVRRLARE 255
>gnl|CDD|200219 TIGR02927, SucB_Actino, 2-oxoglutarate dehydrogenase, E2 component,
dihydrolipoamide succinyltransferase. This model
represents an Actinobacterial clade of E2 enzyme, a
component of the 2-oxoglutarate dehydrogenase complex
involved in the TCA cycle. These proteins have multiple
domains including the catalytic domain (pfam00198), one
or two biotin domains (pfam00364) and an E3-component
binding domain (pfam02817).
Length = 579
Score = 103 bits (258), Expect = 8e-25
Identities = 86/284 (30%), Positives = 127/284 (44%), Gaps = 58/284 (20%)
Query: 40 KRSKYRQSQQPSQLNAIEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQN 99
+ ++ + + A P T ++ GT KMNR+RQ A + E+
Sbjct: 308 EEARAAAAAPAAAAAPAAPAAAAKPAEPDTAKLRGTTQ----KMNRIRQITADKTIESLQ 363
Query: 100 VNAMLTTFNEIDMRKESNTSMPVPAPCNGIIEERFVEDGAT--------VKAGQQLFKIK 151
+A LT +E+DM + A + F+E V+A + K
Sbjct: 364 TSAQLTQVHEVDMTR--------VAALRARAKNDFLEKNGVNLTFLPFFVQAVTEALKAH 415
Query: 152 PTVCTPNSKYRAEKKLRPGRELNSGPPECKPSVAVATPKGLVVPVIRN------------ 199
P V N+ Y AE +E+ E +AV TP+GL+VPVI N
Sbjct: 416 PNV---NASYNAE-----TKEVTYHDVE-HVGIAVDTPRGLLVPVIHNAGDLSLPGLAKA 466
Query: 200 ------------LAIEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAI 247
L ++ GGTFTI+N G G+L TPI+NPPQ+AILG +RP I
Sbjct: 467 INDLAARARDNKLKPDELSGGTFTITNIGSGGALFDTPILNPPQAAILGTGAIVKRPRVI 526
Query: 248 KGQ-----VVVKPMMYVALTYDHRLIDGREAVLFLRKIKAAVED 286
K + + ++ + Y+ LTYDHRL+DG +A FL IK +E+
Sbjct: 527 KDEDGGESIAIRSVCYLPLTYDHRLVDGADAGRFLTTIKKRLEE 570
>gnl|CDD|184847 PRK14843, PRK14843, dihydrolipoamide acetyltransferase;
Provisional.
Length = 347
Score = 96.5 bits (240), Expect = 5e-23
Identities = 81/270 (30%), Positives = 113/270 (41%), Gaps = 59/270 (21%)
Query: 56 IEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDMRKE 115
IE P EI +R+ M MR+ IAQR+ E+ T E+DM +
Sbjct: 102 IEKVEEVPDNVTPYGEI------ERIPMTPMRKVIAQRMVESYLTAPTFTLNYEVDMTEM 155
Query: 116 SNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNS 175
V P I+E AT K K TV T K L +N+
Sbjct: 156 LALRKKVLEP---IME-------ATGK--------KTTV-TDLLSLAVVKTLMKHPYINA 196
Query: 176 GPPE----------CKPSVAVATPKGLVVPVIRN------------------------LA 201
E ++AV GL+ PV+ N LA
Sbjct: 197 SLTEDGKTIITHNYVNLAMAVGMDNGLMTPVVYNAEKMSLSELVVAFKDVIGRTLDGKLA 256
Query: 202 IEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVAL 261
+ TFTISN G+FG PIIN P SAILG+ T E+PV + G++V++P+M + L
Sbjct: 257 PSELQNSTFTISNLGMFGVQSFGPIINQPNSAILGVSSTIEKPVVVNGEIVIRPIMSLGL 316
Query: 262 TYDHRLIDGREAVLFLRKIKAAVEDPRIIL 291
T DHR++DG F++ +K +E P +L
Sbjct: 317 TIDHRVVDGMAGAKFMKDLKELIETPISML 346
>gnl|CDD|236999 PRK11854, aceF, pyruvate dehydrogenase dihydrolipoyltransacetylase;
Validated.
Length = 633
Score = 94.3 bits (235), Expect = 1e-21
Identities = 68/269 (25%), Positives = 110/269 (40%), Gaps = 70/269 (26%)
Query: 64 PPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEIDM------RKESN 117
P D +K G E V++ R+++ L + +T F++ D+ RK+ N
Sbjct: 393 PKVDFSK--FGEIEE--VELGRIQKISGANLHRNWVMIPHVTQFDKADITELEAFRKQQN 448
Query: 118 TS----------MPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAE-KK 166
P+ F+ +KA + P NS + ++
Sbjct: 449 AEAEKRKLGVKITPLV----------FI-----MKAVAAALEQMPRF---NSSLSEDGQR 490
Query: 167 LRPGRELNSGPPECKPSVAVATPKGLVVPVIRN------------------------LAI 202
L + +N G +AV TP GLVVPV ++ L
Sbjct: 491 LTLKKYVNIG-------IAVDTPNGLVVPVFKDVNKKGIIELSRELMDISKKARDGKLTA 543
Query: 203 EDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALT 262
D GG FTIS+ G G+ TPI+N P+ AILG+ + PV + + M+ ++L+
Sbjct: 544 GDMQGGCFTISSIGGLGTTHFTPIVNAPEVAILGVSKSAMEPVWNGKEFAPRLMLPLSLS 603
Query: 263 YDHRLIDGREAVLFLRKIKAAVEDPRIIL 291
YDHR+IDG + F+ I + D R ++
Sbjct: 604 YDHRVIDGADGARFITIINDRLSDIRRLV 632
Score = 35.4 bits (82), Expect = 0.033
Identities = 23/94 (24%), Positives = 33/94 (35%), Gaps = 9/94 (9%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSGPP 178
SM VPAP G ++E V G VK G + + + P + ++ P
Sbjct: 247 SMEVPAPFAGTVKEIKVNVGDKVKTGSLIMRFEVEGAAPAAAPAKQEAAAPAPAAAKAEA 306
Query: 179 ECKPSVAVATPKGLVV---------PVIRNLAIE 203
A A K P++R LA E
Sbjct: 307 PAAAPAAKAEGKSEFAENDAYVHATPLVRRLARE 340
Score = 28.0 bits (63), Expect = 7.5
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAG 144
SM VPAP G ++E V G V G
Sbjct: 146 SMEVPAPFAGTVKEIKVNVGDKVSTG 171
>gnl|CDD|233367 TIGR01349, PDHac_trf_mito, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model represents one of several closely related clades
of the dihydrolipoamide acetyltransferase subunit of the
pyruvate dehydrogenase complex. It includes sequences
from mitochondria and from alpha and beta branches of
the proteobacteria, as well as from some other bacteria.
Sequences from Gram-positive bacteria are not included.
The non-enzymatic homolog protein X, which serves as an
E3 component binding protein, falls within the clade
phylogenetically but is rejected by its low score
[Energy metabolism, Pyruvate dehydrogenase].
Length = 436
Score = 91.4 bits (227), Expect = 8e-21
Identities = 78/281 (27%), Positives = 111/281 (39%), Gaps = 60/281 (21%)
Query: 46 QSQQPSQLNAIEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLT 105
QS + + A P P T S + V ++ +R+ IA+RL E++
Sbjct: 180 QSPASAN----QQAAATTPATYPAAAPVSTGSYEDVPLSNIRKIIAKRLLESKQTIPHYY 235
Query: 106 TFNEIDMRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEK 165
E ++ K + + N + E K F IK +
Sbjct: 236 VSIECNVDK----LLALRKELNAMASEV-------YKLSVNDFIIKASA----------L 274
Query: 166 KLRPGRELNSGPPE--------CKPSVAVATPKGLVVPVIRN------------------ 199
LR E NS + SVAVATP GL+ P++RN
Sbjct: 275 ALREVPEANSSWTDNFIRRYKNVDISVAVATPDGLITPIVRNADAKGLSTISNEIKDLAK 334
Query: 200 ------LAIEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQ--- 250
L E+ GGTFTISN G+FG T IINPPQ+ IL + + V +
Sbjct: 335 RARNNKLKPEEFQGGTFTISNLGMFGIKDFTAIINPPQACILAVGAVEDVAVVDNDEEKG 394
Query: 251 VVVKPMMYVALTYDHRLIDGREAVLFLRKIKAAVEDPRIIL 291
V +M V L+ DHR+IDG FL+ K +E+P +L
Sbjct: 395 FAVASIMSVTLSCDHRVIDGAVGAEFLKSFKKYLENPIEML 435
>gnl|CDD|233366 TIGR01348, PDHac_trf_long, pyruvate dehydrogenase complex
dihydrolipoamide acetyltransferase, long form. This
model describes a subset of pyruvate dehydrogenase
complex dihydrolipoamide acetyltransferase specifically
close by both phylogenetic and per cent identity (UPGMA)
trees. Members of this set include two or three copies
of the lipoyl-binding domain. E. coli AceF is a member
of this model, while mitochondrial and some other
bacterial forms belong to a separate model [Energy
metabolism, Pyruvate dehydrogenase].
Length = 546
Score = 86.5 bits (214), Expect = 5e-19
Identities = 49/132 (37%), Positives = 69/132 (52%), Gaps = 24/132 (18%)
Query: 184 VAVATPKGLVVPVIRN--------LAIEDSD----------------GGTFTISNGGVFG 219
VAV TP GL+VPVI++ LA+E SD G FTIS+ G G
Sbjct: 414 VAVDTPNGLLVPVIKDVDRKGITELALELSDLAKKARDGKLTPDEMQGACFTISSLGGIG 473
Query: 220 SLLGTPIINPPQSAILGMHGTFERPVAIKGQVVVKPMMYVALTYDHRLIDGREAVLFLRK 279
TPI+N P+ AILG+ + PV + + M+ ++L+YDHR+IDG +A F
Sbjct: 474 GTAFTPIVNAPEVAILGVSKSGMEPVWNGKEFEPRLMLPLSLSYDHRVIDGADAARFTTY 533
Query: 280 IKAAVEDPRIIL 291
I ++ D R +L
Sbjct: 534 ICESLADIRRLL 545
Score = 28.3 bits (63), Expect = 6.2
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAEKKLRPGRELNSG-- 176
SM VPAP +G+++ V+ G +V G + + TP + + +
Sbjct: 158 SMEVPAPASGVVKSVKVKVGDSVPTGDLILTLSVAGSTPATAPAPASAQPAAQSPAATQP 217
Query: 177 PPECKPSVAVATPK 190
P P+ A A
Sbjct: 218 EPAAAPAAAKAQAP 231
>gnl|CDD|237002 PRK11857, PRK11857, dihydrolipoamide acetyltransferase; Reviewed.
Length = 306
Score = 81.4 bits (201), Expect = 8e-18
Identities = 74/278 (26%), Positives = 119/278 (42%), Gaps = 42/278 (15%)
Query: 43 KYRQSQQ--PSQLNAIEAATVKL-PPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQN 99
+ +S + P+ A ++ + +R K+ +R+ IA+ + + +
Sbjct: 38 NFIKSLKSAPTPAEAASVSSAQQAAKTAAPAAAPPKLEGKREKVAPIRKAIARAMTNSWS 97
Query: 100 VNAMLTTFNEIDMRK--ESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPTVCTP 157
A + NEIDM K + S+ P ++ F+ KA K P
Sbjct: 98 NVAYVNLVNEIDMTKLWDLRKSVKDPVLKTEGVKLTFLP--FIAKAILIALKEFPIF--- 152
Query: 158 NSKY-RAEKKLRPGRELNSGPPECKPSVAVATPKGLVVPVIRN---------------LA 201
+KY A +L LN G +AV T GL+VPVI+N LA
Sbjct: 153 AAKYDEATSELVYPDTLNLG-------IAVDTEAGLMVPVIKNAQKLSIVEIAKEISRLA 205
Query: 202 I---------EDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTFERPVAIKGQVV 252
++ GG+FTI+N G GSL G P+IN P+ AI G+ ++ + GQ+V
Sbjct: 206 KAARERKIKPDEMKGGSFTITNYGSVGSLYGVPVINYPELAIAGVGAIIDKAIVKNGQIV 265
Query: 253 VKPMMYVALTYDHRLIDGREAVLFLRKIKAAVEDPRII 290
+M++ + DHR IDG F ++K +E P I+
Sbjct: 266 AGKVMHLTVAADHRWIDGATIGRFASRVKELLEKPEIL 303
>gnl|CDD|215397 PLN02744, PLN02744, dihydrolipoyllysine-residue acetyltransferase
component of pyruvate dehydrogenase complex.
Length = 539
Score = 80.7 bits (199), Expect = 5e-17
Identities = 51/137 (37%), Positives = 68/137 (49%), Gaps = 29/137 (21%)
Query: 183 SVAVATPKGLVVPVIR------------------------NLAIEDSDGGTFTISN-GGV 217
+VAV T GL VPV++ +L ED +GGTFT+SN GG
Sbjct: 403 NVAVQTENGLYVPVVKDADKKGLSTIAEEVKQLAQKARENSLKPEDYEGGTFTVSNLGGP 462
Query: 218 FGSLLGTPIINPPQSAILGMHGTFER---PVAIKGQVVVKPMMYVALTYDHRLIDGREAV 274
FG IINPPQSAIL + G+ E+ P + Q M V L+ DHR+IDG
Sbjct: 463 FGIKQFCAIINPPQSAILAV-GSAEKRVIPGSGPDQYNFASFMSVTLSCDHRVIDGAIGA 521
Query: 275 LFLRKIKAAVEDPRIIL 291
+L+ K +E+P +L
Sbjct: 522 EWLKAFKGYIENPESML 538
>gnl|CDD|215289 PLN02528, PLN02528, 2-oxoisovalerate dehydrogenase E2 component.
Length = 416
Score = 77.1 bits (190), Expect = 7e-16
Identities = 45/142 (31%), Positives = 65/142 (45%), Gaps = 31/142 (21%)
Query: 180 CKPS----VAVATPKGLVVPVIRN------------------------LAIEDSDGGTFT 211
K S VA+AT GLVVP I+N L ED GGT T
Sbjct: 272 LKGSHNIGVAMATEHGLVVPNIKNVQSLSLLEITKELSRLQHLAAENKLNPEDITGGTIT 331
Query: 212 ISNGGVFGSLLGTPIINPPQSAILGMHGTFERPV--AIKGQVVVKPMMYVALTYDHRLID 269
+SN G G G+P++N P+ AI+ + G ++ G V +M V + DHR++D
Sbjct: 332 LSNIGAIGGKFGSPVLNLPEVAIIAL-GRIQKVPRFVDDGNVYPASIMTVTIGADHRVLD 390
Query: 270 GREAVLFLRKIKAAVEDPRIIL 291
G F + K+ VE P +++
Sbjct: 391 GATVARFCNEWKSYVEKPELLM 412
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 46.4 bits (111), Expect = 1e-05
Identities = 35/129 (27%), Positives = 54/129 (41%), Gaps = 35/129 (27%)
Query: 186 VATPKG---LVVPVIRN------------------------LAIEDSDGGTFTISNGGVF 218
+ G LVVP I+ L +D G T +++N G
Sbjct: 217 LPKKDGSRQLVVPAIKGAETMDFAQFWAAYEDIVRRARDGKLTADDFQGTTISLTNPGGI 276
Query: 219 GSLLGTPIINPPQSAILGMHGTFERPVAIKG-------QVVVKPMMYVALTYDHRLIDGR 271
G++ P + Q AI+G+ G E P +G ++ + +M + TYDHR+I G
Sbjct: 277 GTVHSVPRLMKGQGAIIGV-GAMEYPAEFQGASEERLAELGISKVMTLTSTYDHRIIQGA 335
Query: 272 EAVLFLRKI 280
E+ FLR I
Sbjct: 336 ESGEFLRTI 344
>gnl|CDD|133458 cd06849, lipoyl_domain, Lipoyl domain of the dihydrolipoyl
acyltransferase component (E2) of 2-oxo acid
dehydrogenases. 2-oxo acid dehydrogenase multienzyme
complexes, like pyruvate dehydrogenase (PDH),
2-oxoglutarate dehydrogenase (OGDH) and branched-chain
2-oxo acid dehydrogenase (BCDH), contain at least three
different enzymes, 2-oxo acid dehydrogenase (E1),
dihydrolipoyl acyltransferase (E2) and dihydrolipoamide
dehydrogenase (E3) and play a key role in redox
regulation. E2, the central component of the complex,
catalyzes the transfer of the acyl group of CoA from E1
to E3 via reductive acetylation of a lipoyl group
covalently attached to a lysine residue.
Length = 74
Score = 40.1 bits (95), Expect = 6e-05
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 118 TSMPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
++ V AP G++ + VE+G TV GQ + I
Sbjct: 42 ATVEVEAPAAGVLAKILVEEGDTVPVGQVIAVI 74
>gnl|CDD|223585 COG0511, AccB, Biotin carboxyl carrier protein [Lipid metabolism].
Length = 140
Score = 40.8 bits (96), Expect = 1e-04
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 120 MPVPAPCNGIIEERFVEDGATVKAGQQLFKIKP 152
+ AP +G+++E V++G V+ G L I+P
Sbjct: 108 NEIEAPADGVVKEILVKNGDPVEYGDPLAVIEP 140
Score = 28.1 bits (63), Expect = 3.4
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 120 MPVPAPCNGIIEERFVEDGATVKAGQQL 147
V +P G + + FVE G TVKAGQ L
Sbjct: 71 TQVTSPMVGTVYKPFVEVGDTVKAGQTL 98
>gnl|CDD|201182 pfam00364, Biotin_lipoyl, Biotin-requiring enzyme. This family
covers two Prosite entries, the conserved lysine residue
binds biotin in one group and lipoic acid in the other.
Note that the HMM does not currently recognise the
Glycine cleavage system H proteins.
Length = 73
Score = 39.1 bits (92), Expect = 1e-04
Identities = 14/32 (43%), Positives = 21/32 (65%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
M +PAP G+++E V++G TV+ G L KI
Sbjct: 42 EMEIPAPVAGVVKEILVKEGDTVEVGDPLAKI 73
>gnl|CDD|133459 cd06850, biotinyl_domain, The biotinyl-domain or biotin carboxyl
carrier protein (BCCP) domain is present in all
biotin-dependent enzymes, such as acetyl-CoA
carboxylase, pyruvate carboxylase, propionyl-CoA
carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA
carboxylase, oxaloacetate decarboxylase,
methylmalonyl-CoA decarboxylase, transcarboxylase and
urea amidolyase. This domain functions in transferring
CO2 from one subsite to another, allowing carboxylation,
decarboxylation, or transcarboxylation. During this
process, biotin is covalently attached to a specific
lysine.
Length = 67
Score = 38.9 bits (92), Expect = 2e-04
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 120 MPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
V AP G+++E V++G V+AGQ L I
Sbjct: 37 NEVTAPVAGVVKEILVKEGDQVEAGQLLVVI 67
Score = 30.1 bits (69), Expect = 0.18
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 122 VPAPCNGIIEERFVEDGATVKAGQQL 147
V AP G + + V++G V+AGQ L
Sbjct: 2 VTAPMPGTVVKVLVKEGDKVEAGQPL 27
>gnl|CDD|205711 pfam13533, Biotin_lipoyl_2, Biotin-lipoyl like.
Length = 50
Score = 35.9 bits (84), Expect = 0.001
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 119 SMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKPT 153
+ + P +G + V++G +VK G LF +
Sbjct: 2 VVNIAPPVSGRVVAVNVKEGQSVKKGDVLFTLDSE 36
>gnl|CDD|236449 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 37.9 bits (89), Expect = 0.006
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 121 PVPAPCNGIIEERFVEDGATVKAGQQLFKIKP 152
+ AP +G ++E V++G V G L +I+P
Sbjct: 561 EIQAPVDGTVKEILVKEGDRVNPGDVLMEIEP 592
>gnl|CDD|215974 pfam00529, HlyD, HlyD family secretion protein.
Length = 304
Score = 37.1 bits (86), Expect = 0.007
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 121 PVPAPCNGIIEERFVEDGATVKAGQQLFKIKPT 153
V +GI+ V++G VKAG L ++ PT
Sbjct: 4 EVQPQVSGIVIRILVKEGDRVKAGDVLVRLDPT 36
>gnl|CDD|235777 PRK06302, PRK06302, acetyl-CoA carboxylase biotin carboxyl carrier
protein subunit; Validated.
Length = 155
Score = 35.9 bits (84), Expect = 0.008
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 16/63 (25%)
Query: 92 QRLKEAQN---VNAMLTTFNEIDMRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLF 148
+KE Q + AM NEI A +G++ E VE+G V+ GQ LF
Sbjct: 106 DTVKEGQTLCIIEAM-KVMNEI------------EADKSGVVTEILVENGQPVEFGQPLF 152
Query: 149 KIK 151
I+
Sbjct: 153 VIE 155
>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed.
Length = 1068
Score = 33.5 bits (77), Expect = 0.15
Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 7/83 (8%)
Query: 23 TRSEQRVKMNRNGRNLQKRSKYRQSQQPSQLNAIEAATVKLPPADPTKEISGTRSEQRVK 82
TR + + R R +R++ + QQ ++ + A V + + + R +
Sbjct: 623 TRDNRTRREGRENREENRRNRRQAQQQTAETRESQQAEV----TEKARTQDEQQQAPRRE 678
Query: 83 MNRMRQ---RIAQRLKEAQNVNA 102
R R R AQ+ +A NV
Sbjct: 679 RQRRRNDEKRQAQQEAKALNVEE 701
>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein,
HlyD family. Type I secretion is an ABC transport
process that exports proteins, without cleavage of any
signal sequence, from the cytosol to extracellular
medium across both inner and outer membranes. The
secretion signal is found in the C-terminus of the
transported protein. This model represents the adaptor
protein between the ATP-binding cassette (ABC) protein
of the inner membrane and the outer membrane protein,
and is called the membrane fusion protein. This model
selects a subfamily closely related to HlyD; it is
defined narrowly and excludes, for example, colicin V
secretion protein CvaA and multidrug efflux proteins
[Protein fate, Protein and peptide secretion and
trafficking].
Length = 423
Score = 33.1 bits (76), Expect = 0.16
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 127 NGIIEERFVEDGATVKAGQQLFKIKPT 153
GI+ E V +G VKAGQ L ++ T
Sbjct: 51 GGIVREILVREGDRVKAGQVLVELDAT 77
Score = 30.4 bits (69), Expect = 1.3
Identities = 13/89 (14%), Positives = 33/89 (37%), Gaps = 6/89 (6%)
Query: 71 EISGTRSEQRVKMNRMRQRIAQRLKEA-QNVNAMLTTFNEIDMR----KESNTSMPVPAP 125
E+ + + +Q +E + + E+ R ++ + + +P
Sbjct: 218 ELEVLKRQIDELQLERQQIEQTFREEVLEELTEAQARLAELRERLNKARDRLQRLIIRSP 277
Query: 126 CNGIIEE-RFVEDGATVKAGQQLFKIKPT 153
+G ++ + G V+ G+ L +I P
Sbjct: 278 VDGTVQSLKVHTVGGVVQPGETLMEIVPE 306
>gnl|CDD|233547 TIGR01730, RND_mfp, RND family efflux transporter, MFP subunit.
This model represents the MFP (membrane fusion protein)
component of the RND family of transporters. RND refers
to Resistance, Nodulation, and cell Division. It is, in
part, a subfamily of pfam00529 (Pfam release 7.5) but
hits substantial numbers of proteins missed by that
model. The related HlyD secretion protein, for which
pfam00529 is named, is outside the scope of this model.
Attributed functions imply outward transport. These
functions include nodulation, acriflavin resistance,
heavy metal efflux, and multidrug resistance proteins.
Most members of this family are found in Gram-negative
bacteria. The proposed function of MFP proteins is to
bring the inner and outer membranes together and enable
transport to the outside of the outer membrane. Note,
however, that a few members of this family are found in
Gram-positive bacteria, where there is no outer membrane
[Transport and binding proteins, Unknown substrate].
Length = 322
Score = 31.9 bits (73), Expect = 0.38
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 127 NGIIEERFVEDGATVKAGQQLFKIKPT 153
G I + V +G VK GQ L ++
Sbjct: 34 AGKITKISVREGQKVKKGQVLARLDDD 60
Score = 29.2 bits (66), Expect = 2.4
Identities = 15/27 (55%), Positives = 16/27 (59%)
Query: 124 APCNGIIEERFVEDGATVKAGQQLFKI 150
AP +G I R VE GA V AGQ L I
Sbjct: 139 APFDGTIGRRLVEVGAYVTAGQTLATI 165
>gnl|CDD|221723 pfam12700, HlyD_2, HlyD family secretion protein. This family is
related to pfam00529.
Length = 328
Score = 31.2 bits (71), Expect = 0.58
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 122 VPAPCNGIIEERFVEDGATVKAGQQLFKIKPT 153
V A +G I+ +V++G VK GQ L I +
Sbjct: 24 VTAEVSGYIK-YYVKEGEKVKKGQVLATIDSS 54
>gnl|CDD|224482 COG1566, EmrA, Multidrug resistance efflux pump [Defense
mechanisms].
Length = 352
Score = 31.1 bits (71), Expect = 0.68
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 128 GIIEERFVEDGATVKAGQQLFKIKPT 153
G + E V+D VK G LF+I P
Sbjct: 62 GRVTEVNVKDNQLVKKGDVLFRIDPR 87
>gnl|CDD|225101 COG2190, NagE, Phosphotransferase system IIA components
[Carbohydrate transport and metabolism].
Length = 156
Score = 30.3 bits (69), Expect = 0.75
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 132 ERFVEDGATVKAGQQLFK-------------IKPTVCTPNSKYRAEKKLRPGRELNSG 176
E V++G VKAG L + I P V T ++ KL G E+ +G
Sbjct: 90 ESLVKEGDKVKAGDPLLEFDLDLIKAKGYSTITPVVVTNMDDFKKIVKLSGGGEVKAG 147
>gnl|CDD|222128 pfam13437, HlyD_3, HlyD family secretion protein. This is a family
of largely bacterial haemolysin translocator HlyD
proteins.
Length = 102
Score = 29.3 bits (66), Expect = 0.83
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 5/41 (12%)
Query: 124 APCNGIIEERFVEDGATVKAGQQLFKIKPTVCTPNSKYRAE 164
AP +G++ E VE+G V AG L +I E
Sbjct: 4 APIDGVVAELDVEEGQVVAAGDPLAEI-----VDPDTLWVE 39
>gnl|CDD|199871 cd06251, M14_ASTE_ASPA_like_1, Peptidase M14 Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA)-like;
uncharacterized subgroup. A functionally
uncharacterized subgroup of the Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily
which is part of the M14 family of
metallocarboxypeptidases. ASTE catalyzes the fifth and
last step in arginine catabolism by the arginine
succinyltransferase pathway, and aspartoacylase (ASPA,
also known as aminoacylase 2, and ACY-2; EC:3.5.1.15)
cleaves N-acetyl L-aspartic acid (NAA) into aspartate
and acetate. NAA is abundant in the brain, and
hydrolysis of NAA by ASPA may help maintain white
matter. ASPA is an NAA scavenger in other tissues.
Mutations in the gene encoding ASPA cause Canavan
disease (CD), a fatal progressive neurodegenerative
disorder involving dysmyelination and spongiform
degeneration of white matter in children. This enzyme
binds zinc which is necessary for activity. Measurement
of elevated NAA levels in urine is used in the diagnosis
of CD.
Length = 287
Score = 30.2 bits (69), Expect = 1.2
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 116 SNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
+ +S V AP G++ V+ G V+ GQ L I
Sbjct: 216 ARSSKWVRAPRGGLLR-SLVKLGDRVEKGQLLATI 249
>gnl|CDD|133456 cd06663, Biotinyl_lipoyl_domains, Biotinyl_lipoyl_domains are
present in biotin-dependent carboxylases/decarboxylases,
the dihydrolipoyl acyltransferase component (E2) of
2-oxo acid dehydrogenases, and the H-protein of the
glycine cleavage system (GCS). These domains transport
CO2, acyl, or methylamine, respectively, between
components of the complex/protein via a biotinyl or
lipoyl group, which is covalently attached to a highly
conserved lysine residue.
Length = 73
Score = 28.2 bits (63), Expect = 1.2
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 122 VPAPCNGIIEERFVEDGATVKAGQQLFKI 150
V AP +G +++ V++G V+ L KI
Sbjct: 45 VEAPKSGTVKKVLVKEGTKVEGDTPLVKI 73
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 29.9 bits (68), Expect = 1.9
Identities = 19/82 (23%), Positives = 34/82 (41%), Gaps = 16/82 (19%)
Query: 38 LQKRSKYRQ---------SQQPSQLNAIEAATVKL--PPADPTKEISGTRSEQRVKMNRM 86
L K + ++ +Q P++L +A L + T+E T S + ++
Sbjct: 72 LDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRETLSTLS-----LRQL 126
Query: 87 RQRIAQRLKEAQNVNAMLTTFN 108
R+AQ L + QN L +N
Sbjct: 127 ESRLAQTLDQLQNAQNDLAEYN 148
>gnl|CDD|200448 cd11292, gelsolin_S3_like, Gelsolin sub-domain 3-like domain found
in gelsolin, severin, villin, and related proteins.
Gelsolin repeats occur in gelsolin, severin, villin,
advillin, villidin, supervillin, flightless, quail,
fragmin, and other proteins, usually in several copies.
They co-occur with villin headpiece domains,
leucine-rich repeats, and several other domains. These
gelsolin-related actin binding proteins (GRABPs) play
regulatory roles in the assembly and disassembly of
actin filaments; they are involved in F-actin capping,
uncapping, severing, or the nucleation of actin
filaments. Severing of actin filaments is Ca2+
dependent. Villins are also linked to generating bundles
of F-actin with uniform filament polarity, which is most
likely mediated by their extra villin headpiece domain.
Many family members have also adopted functions in the
nucleus, including the regulation of transcription.
Supervillin, gelsolin, and flightless I are involved in
intracellular signaling via nuclear hormone receptors.
The gelsolin-like domain is distantly related to the
actin depolymerizing domains found in cofilin and
similar proteins.
Length = 98
Score = 28.0 bits (63), Expect = 2.0
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 242 ERPVAIK-GQVVVKPMMYVALTYDHRLIDGREAVLFLRKIKA 282
ER A+K + ++ T R+ +G E+ LF K
Sbjct: 57 ERKAALKNAEEFLRKKKRPPYTQVTRVTEGGESALFKSKFAN 98
>gnl|CDD|233229 TIGR00999, 8a0102, Membrane Fusion Protein cluster 2 (function with
RND porters). [Transport and binding proteins, Other].
Length = 265
Score = 29.3 bits (66), Expect = 2.4
Identities = 20/103 (19%), Positives = 39/103 (37%), Gaps = 8/103 (7%)
Query: 52 QLNAIEAATVKLPPADPTKEISGTRSEQRV----KMNRMRQRIAQRLKEAQNVNAMLTTF 107
++ A ++ A T E EQ V + + + E Q + L +
Sbjct: 21 MAAELKVAQKRVELARKTYEREKKLFEQGVIPRQEFESAEYALEEAQAEVQAAKSELRSA 80
Query: 108 NEIDMRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
E + + + V +P +G I ++ V G V +LF++
Sbjct: 81 RE----AKDGSYVEVRSPFDGYITQKSVTLGDYVAPQAELFRV 119
>gnl|CDD|237263 PRK12999, PRK12999, pyruvate carboxylase; Reviewed.
Length = 1146
Score = 29.3 bits (67), Expect = 2.5
Identities = 21/104 (20%), Positives = 40/104 (38%), Gaps = 21/104 (20%)
Query: 54 NAIEAATVKLPPADPT--KEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNA---MLTTFN 108
++++ ADP + V + +KE V A +
Sbjct: 1059 RSVKSTVAAREKADPGNPGHVGAPMPGSVVTVL---------VKEGDEVKAGDPLAVI-- 1107
Query: 109 EIDMRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKP 152
E M+ E+ + AP +G ++ V+ G V+AG L +++P
Sbjct: 1108 EA-MKMETT----ITAPVDGTVKRVLVKAGDQVEAGDLLVELEP 1146
>gnl|CDD|218511 pfam05227, CHASE3, CHASE3 domain. CHASE3 is an extracellular
sensory domain, which is present in various classes of
transmembrane receptors that are parts of signal
transduction pathways in bacteria. Specifically, CHASE3
domains are found in histidine kinases, adenylate
cyclases, methyl-accepting chemotaxis proteins and
predicted diguanylate cyclases/phosphodiesterases.
Environmental factors that are recognised by CHASE3
domains are not known at this time.
Length = 138
Score = 28.4 bits (64), Expect = 2.7
Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 47 SQQPSQLNAIEAATVKLPPA-DPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLT 105
+ S L E A ++P A D ++++ EQ+ +++R+ I QRL+E +
Sbjct: 35 TGDESFLEPYEEARARIPEALDRLRQLTADNPEQQERLDRLEALIDQRLEELEET----- 89
Query: 106 TFNEIDMRKESN 117
I +R+E
Sbjct: 90 ----IALRREGG 97
>gnl|CDD|169982 PRK09578, PRK09578, periplasmic multidrug efflux lipoprotein
precursor; Reviewed.
Length = 385
Score = 29.0 bits (65), Expect = 2.9
Identities = 16/44 (36%), Positives = 22/44 (50%)
Query: 109 EIDMRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKIKP 152
E+ R ++ V A GI+ R E+G VK G LF+I P
Sbjct: 53 ELPGRLDAYRQAEVRARVAGIVTARTYEEGQEVKQGAVLFRIDP 96
>gnl|CDD|223914 COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis,
outer membrane].
Length = 372
Score = 28.9 bits (64), Expect = 3.1
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 127 NGIIEERFVEDGATVKAGQQLFKIKPT 153
GI+ E V++G VK GQ L ++ P+
Sbjct: 74 AGIVAEILVKEGDRVKKGQLLARLDPS 100
Score = 27.8 bits (61), Expect = 7.3
Identities = 23/99 (23%), Positives = 32/99 (32%), Gaps = 3/99 (3%)
Query: 52 QLNAIEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNVNAMLTTFNEID 111
QL +A D +E + V + A V A +
Sbjct: 113 QLARAQALLAPAELGDLQREAKLAAEKAAVSQAELDAAQALLRAAEALVEAAQ---AALA 169
Query: 112 MRKESNTSMPVPAPCNGIIEERFVEDGATVKAGQQLFKI 150
K + + AP +G+I R V G V AGQ L I
Sbjct: 170 SAKLNLEYTRITAPISGVIGARLVRVGQLVSAGQALATI 208
>gnl|CDD|233273 TIGR01108, oadA, oxaloacetate decarboxylase alpha subunit. This
model describes the bacterial oxaloacetate decarboxylase
alpha subunit and its equivalents in archaea. The
oxaloacetate decarboxylase Na+ pump is the paradigm of
the family of Na+ transport decarboxylases that present
in bacteria and archaea. It a multi subunit enzyme
consisting of a peripheral alpha-subunit and integral
membrane subunits beta and gamma. The energy released by
the decarboxylation reaction of oxaloacetate is coupled
to Na+ ion pumping across the membrane [Transport and
binding proteins, Cations and iron carrying compounds,
Energy metabolism, Other].
Length = 582
Score = 29.0 bits (65), Expect = 3.3
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 121 PVPAPCNGIIEERFVEDGATVKAGQQLF-----KIKPTVCTPNSKYRAEKKLRPGRELNS 175
PV AP G I + V +G TV G+ L K++ + + E ++ G ++
Sbjct: 519 PVTAPIAGSIVKVKVSEGQTVAEGEVLLILEAMKMETEIKAAAAGTVREILVKVGDAVSV 578
Query: 176 G 176
G
Sbjct: 579 G 579
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 29.1 bits (65), Expect = 3.3
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 181 KPSVAVATPKGLVVPV-IRNLAIEDSDGGTFTISNGGVFGSLLG 223
KP+ P + +PV IR++ + D DG I +F S+ G
Sbjct: 338 KPTCIAGCPVQIDIPVFIRHVVVRDFDGALEVIYEASIFPSICG 381
>gnl|CDD|216033 pfam00630, Filamin, Filamin/ABP280 repeat.
Length = 93
Score = 27.3 bits (61), Expect = 3.4
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 176 GPPECKPSVAVATPKGLVVPVIRNLAIEDSDGGTFTIS 213
G P V V P G VPV + D+ GT+T+S
Sbjct: 34 GGPVTGFDVEVTGPSGSKVPVE----VIDNGDGTYTVS 67
>gnl|CDD|233228 TIGR00998, 8a0101, efflux pump membrane protein (multidrug
resistance protein A). [Transport and binding proteins,
Other].
Length = 334
Score = 28.6 bits (64), Expect = 3.8
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 124 APCNGIIEERFVEDGATVKAGQQLFKIKPT 153
AP +G + RFV+ G V GQ L + P
Sbjct: 209 APFDGYVARRFVQVGQVVSPGQPLMAVVPA 238
>gnl|CDD|223116 COG0038, EriC, Chloride channel protein EriC [Inorganic ion
transport and metabolism].
Length = 443
Score = 28.8 bits (65), Expect = 4.0
Identities = 17/59 (28%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 183 SVAVATPKGLVVPVIRNLAIEDSDGGTFTISNGGVFGSLLGTPIINPPQSAILGMHGTF 241
S P G+ P L I + G F G + G L I+ P A+LGM
Sbjct: 326 SYGSGAPGGIFAPS---LFIGAALGLAF----GALLGLLFPPSILEPGLFALLGMAAFL 377
>gnl|CDD|224259 COG1340, COG1340, Uncharacterized archaeal coiled-coil protein
[Function unknown].
Length = 294
Score = 28.5 bits (64), Expect = 4.3
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 2/64 (3%)
Query: 56 IEAATVKLPPADPTKEISGTRSEQRVKMNRMRQRIAQRLKEAQNV-NAMLTTFNEID-MR 113
+E A L + KE+ E + K + ++I + EAQ M+ F E D +R
Sbjct: 147 LEDAKKALEENEKLKELKAEIDELKKKAREIHEKIQELANEAQEYHEEMIKLFEEADELR 206
Query: 114 KESN 117
KE++
Sbjct: 207 KEAD 210
>gnl|CDD|180678 PRK06748, PRK06748, hypothetical protein; Validated.
Length = 83
Score = 26.8 bits (59), Expect = 4.9
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 122 VPAPCNGIIEERFVEDGATVKAGQQLFKIK 151
V +PC G +E+ FV + + V ++L I+
Sbjct: 7 VYSPCYGKVEKLFVRESSYVYEWEKLALIE 36
>gnl|CDD|238504 cd01031, EriC, ClC chloride channel EriC. This domain is found in
the EriC chloride transporters that mediate the extreme
acid resistance response in eubacteria and archaea. This
response allows bacteria to survive in the acidic
environments by decarboxylation-linked proton
utilization. As shown for Escherichia coli EriC, these
channels can counterbalance the electric current
produced by the outwardly directed virtual proton pump
linked to amino acid decarboxylation. The EriC proteins
belong to the ClC superfamily of chloride ion channels,
which share a unique double-barreled architecture and
voltage-dependent gating mechanism. The
voltage-dependent gating is conferred by the permeating
anion itself, acting as the gating charge. In
Escherichia coli EriC, a glutamate residue that
protrudes into the pore is thought to participate in
gating by binding to a Cl- ion site within the
selectivity filter.
Length = 402
Score = 28.3 bits (64), Expect = 5.7
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 10/45 (22%)
Query: 207 GGTF--TISNGGVFGSLLGT--------PIINPPQSAILGMHGTF 241
GG F ++ G + G L GT PI P AI GM F
Sbjct: 306 GGIFAPMLALGALLGLLFGTILVQLGPIPISAPATFAIAGMAAFF 350
>gnl|CDD|236512 PRK09430, djlA, Dna-J like membrane chaperone protein; Provisional.
Length = 267
Score = 27.5 bits (62), Expect = 8.0
Identities = 8/34 (23%), Positives = 16/34 (47%)
Query: 26 EQRVKMNRNGRNLQKRSKYRQSQQPSQLNAIEAA 59
+Q ++M + G Q++ QQ + +E A
Sbjct: 169 DQLLRMMQAGFRFQQQQGGGGYQQAQRGPTLEDA 202
>gnl|CDD|223968 COG1038, PycA, Pyruvate carboxylase [Energy production and
conversion].
Length = 1149
Score = 28.1 bits (63), Expect = 8.2
Identities = 9/32 (28%), Positives = 17/32 (53%)
Query: 120 MPVPAPCNGIIEERFVEDGATVKAGQQLFKIK 151
+ AP +G ++E V+DG + G L ++
Sbjct: 1117 TTISAPFDGTVKEVLVKDGDQIDGGDLLVVVE 1148
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
0.316 0.132 0.373
Gapped
Lambda K H
0.267 0.0842 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,212,117
Number of extensions: 1468669
Number of successful extensions: 1534
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1506
Number of HSP's successfully gapped: 101
Length of query: 294
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 198
Effective length of database: 6,679,618
Effective search space: 1322564364
Effective search space used: 1322564364
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: 59 (26.3 bits)