RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022704
(293 letters)
>gnl|CDD|215572 PLN03096, PLN03096, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 395
Score = 499 bits (1285), Expect = e-179
Identities = 224/239 (93%), Positives = 232/239 (97%)
Query: 55 GTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNC 114
GTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNAD YK +PIISNASCTTNC
Sbjct: 157 GTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADDYKHSDPIISNASCTTNC 216
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV
Sbjct: 217 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 276
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
ALVLP LKGKLNGIALRVPTPNVSVVDLVVQV KKTFAEEVNAAFR++A+ ELKGIL+VC
Sbjct: 277 ALVLPNLKGKLNGIALRVPTPNVSVVDLVVQVEKKTFAEEVNAAFRDAAEKELKGILAVC 336
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANNWK 293
DEPLVSVDFRCSDVSST+DSSLT+VMGDDMVKV+AWYDNEWGYSQRVVDLADIVAN WK
Sbjct: 337 DEPLVSVDFRCSDVSSTIDSSLTMVMGDDMVKVVAWYDNEWGYSQRVVDLADIVANKWK 395
>gnl|CDD|215131 PLN02237, PLN02237, glyceraldehyde-3-phosphate dehydrogenase B.
Length = 442
Score = 440 bits (1134), Expect = e-155
Identities = 202/241 (83%), Positives = 218/241 (90%), Gaps = 3/241 (1%)
Query: 55 GTGVFVDREGAGKHIQAGAKKVLITAPGKG-DIPTYVVGVNADAYKPDEP-IISNASCTT 112
GTGVFVD GAGKHIQAGAKKV+ITAP KG DIPTYVVGVN D Y + I+SNASCTT
Sbjct: 172 GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEDDYDHEVANIVSNASCTT 231
Query: 113 NCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAK 172
NCLAPFVKVLD++FGI+KGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAK
Sbjct: 232 NCLAPFVKVLDEEFGIVKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAK 291
Query: 173 AVALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTF-AEEVNAAFRESADNELKGIL 231
AV+LVLP LKGKLNGIALRVPTPNVSVVDLVV V KK AE+VNAAFR++AD LKGIL
Sbjct: 292 AVSLVLPQLKGKLNGIALRVPTPNVSVVDLVVNVEKKGITAEDVNAAFRKAADGPLKGIL 351
Query: 232 SVCDEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANN 291
+VCD PLVSVDFRCSDVSST+D+SLT+VMGDDMVKV+AWYDNEWGYSQRVVDLA +VA
Sbjct: 352 AVCDVPLVSVDFRCSDVSSTIDASLTMVMGDDMVKVVAWYDNEWGYSQRVVDLAHLVAAK 411
Query: 292 W 292
W
Sbjct: 412 W 412
>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 337
Score = 411 bits (1058), Expect = e-145
Identities = 185/240 (77%), Positives = 204/240 (85%), Gaps = 2/240 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKG-DIPTYVVGVNADAYKPDE-PIISNASCTTN 113
TGVFV +EGA KHIQAGAKKVLITAPGKG DI TYVVGVN Y ++ IISNASCTTN
Sbjct: 98 TGVFVTKEGASKHIQAGAKKVLITAPGKGEDIGTYVVGVNHHEYDHEDHNIISNASCTTN 157
Query: 114 CLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKA 173
CLAP KVL FGIIKGTMTTTHSYTGDQR+LDASHRDLRRARAAA+NIVPTSTGAAKA
Sbjct: 158 CLAPIAKVLHDNFGIIKGTMTTTHSYTGDQRILDASHRDLRRARAAAVNIVPTSTGAAKA 217
Query: 174 VALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSV 233
VALV+P LKGKLNGIALRVPTPNVSVVDLVVQV K+T E+VN +++++ LKGIL
Sbjct: 218 VALVIPELKGKLNGIALRVPTPNVSVVDLVVQVEKRTITEQVNEVLKDASEGPLKGILEY 277
Query: 234 CDEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANNWK 293
D PLVS D+R +D SS VD+SLT+VMG DMVKVIAWYDNEWGYSQRVVDLA++VA WK
Sbjct: 278 SDLPLVSSDYRGTDASSIVDASLTMVMGGDMVKVIAWYDNEWGYSQRVVDLAELVARKWK 337
>gnl|CDD|233453 TIGR01534, GAPDH-I, glyceraldehyde-3-phosphate dehydrogenase, type
I. This model represents glyceraldehyde-3-phosphate
dehydrogenase (GAPDH), the enzyme responsible for the
interconversion of 1,3-diphosphoglycerate and
glyceraldehyde-3-phosphate, a central step in glycolysis
and gluconeogenesis. Forms exist which utilize NAD (EC
1.2.1.12), NADP (EC 1.2.1.13) or either (1.2.1.59). In
some species, NAD- and NADP- utilizing forms exist,
generally being responsible for reactions in the
anabolic and catabolic directions respectively. Two PFAM
models cover the two functional domains of this protein;
pfam00044 represents the N-terminal NAD(P)-binding
domain and pfam02800 represents the C-terminal catalytic
domain. An additional form of gap gene is found in gamma
proteobacteria and is responsible for the conversion of
erythrose-4-phosphate (E4P) to 4-phospho-erythronate in
the biosynthesis of pyridoxine. This pathway of
pyridoxine biosynthesis appears to be limited, however,
to a relatively small number of bacterial species
although it is prevalent among the gamma-proteobacteria.
This enzyme is described by TIGR001532. These sequences
generally score between trusted and noise to this GAPDH
model due to the close evolutionary relationship. There
exists the possiblity that some forms of GAPDH may be
bifunctional and act on E4P in species which make
pyridoxine and via hydroxythreonine and lack a separate
E4PDH enzyme (for instance, the GAPDH from Bacillus
stearothermophilus has been shown to posess a limited
E4PD activity as well as a robust GAPDH activity). There
are a great number of sequences in the databases which
score between trusted and noise to this model, nearly
all of them due to fragmentary sequences. It seems that
study of this gene has been carried out in many species
utilizing PCR probes which exclude the extreme ends of
the consenses used to define this model. The noise level
is set relative not to E4PD, but the next closest
outliers, the class II GAPDH's (found in archaea,
TIGR01546) and aspartate semialdehyde dehydrogenase
(ASADH, TIGR01296) both of which have highest-scoring
hits around -225 to the prior model [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 326
Score = 383 bits (985), Expect = e-134
Identities = 148/230 (64%), Positives = 174/230 (75%), Gaps = 2/230 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNCL 115
TG F D+E H++AGAKKVLI+AP KGD+ T V GVN D Y P E I+SNASCTTNCL
Sbjct: 97 TGKFRDKEKLEGHLEAGAKKVLISAPSKGDVKTIVYGVNHDEYDPSERIVSNASCTTNCL 156
Query: 116 APFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAVA 175
AP KVLD+ FGI+ G MTT HSYT DQ L+D H+DLRRARAAALNI+PTSTGAAKA+
Sbjct: 157 APLAKVLDEAFGIVSGLMTTVHSYTNDQNLVDGPHKDLRRARAAALNIIPTSTGAAKAIG 216
Query: 176 LVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVCD 235
VLP L GKL G+A+RVPTPNVS+VDLVV + K EEVNAA +E+A+ ELKG+L +
Sbjct: 217 KVLPELAGKLTGMAIRVPTPNVSLVDLVVNLEKDVTVEEVNAALKEAAEGELKGVLGYTE 276
Query: 236 EPLVSVDFRCSDVSSTVDSSLTLVMGDD--MVKVIAWYDNEWGYSQRVVD 283
+ LVS DF S SS VD++ T V G +VKV+AWYDNEWGYS RVVD
Sbjct: 277 DELVSSDFIGSPYSSIVDATATKVTGLGDSLVKVVAWYDNEWGYSNRVVD 326
>gnl|CDD|223135 COG0057, GapA, Glyceraldehyde-3-phosphate
dehydrogenase/erythrose-4-phosphate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 335
Score = 369 bits (951), Expect = e-129
Identities = 149/239 (62%), Positives = 181/239 (75%), Gaps = 1/239 (0%)
Query: 56 TGVFVDREGAGKHIQA-GAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNC 114
TG F RE A KH++A GAKKVLI+APGK D+ T V GVN + Y I+SNASCTTNC
Sbjct: 97 TGKFTGREKAEKHLKAGGAKKVLISAPGKDDVATVVYGVNHNYYDAGHTIVSNASCTTNC 156
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
LAP KVL+ FGI KG MTT H+YT DQ+L+D H+DLRRARAAALNI+PTSTGAAKAV
Sbjct: 157 LAPVAKVLNDAFGIEKGLMTTVHAYTNDQKLVDGPHKDLRRARAAALNIIPTSTGAAKAV 216
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
LVLP LKGKL G+A+RVPTPNVSVVDL V++ K+ EE+NAA + +++ LKGIL
Sbjct: 217 GLVLPELKGKLTGMAIRVPTPNVSVVDLTVELEKEVTVEEINAALKAASEIGLKGILGYT 276
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANNWK 293
++PLVS DF SS D+S T+V+G ++VK++AWYDNEWGYS RVVDL +VA K
Sbjct: 277 EDPLVSSDFNGDPHSSIFDASATIVLGGNLVKLVAWYDNEWGYSNRVVDLLAMVAKALK 335
>gnl|CDD|236079 PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 343
Score = 360 bits (925), Expect = e-125
Identities = 143/239 (59%), Positives = 178/239 (74%), Gaps = 1/239 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDE-PIISNASCTTNC 114
TG F +E A H++AGAKKV++TAPGK + T VVGVN D ++ IISNASCTTNC
Sbjct: 97 TGKFNSKEKAILHVEAGAKKVILTAPGKNEDVTIVVGVNEDQLDIEKHTIISNASCTTNC 156
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
LAP VKVLD++FGI G MTT H+YT DQ+ +D H+DLRRARA +I+PT+TGAAKA+
Sbjct: 157 LAPVVKVLDEQFGIENGLMTTVHAYTNDQKNIDNPHKDLRRARACGQSIIPTTTGAAKAL 216
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
A VLP L GKL+G+ALRVPTPNVS+VDLVV V + EE+N AF+ +A+ LKGIL
Sbjct: 217 AKVLPHLNGKLHGMALRVPTPNVSLVDLVVDVKRDVTVEEINEAFKTAANGALKGILEFS 276
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVANNWK 293
+EPLVS+DF + S+ +D T+VMGD VKV+AWYDNEWGYS RVVDL +VA+
Sbjct: 277 EEPLVSIDFNTNTHSAIIDGLSTMVMGDRKVKVLAWYDNEWGYSCRVVDLVTLVADELA 335
>gnl|CDD|217235 pfam02800, Gp_dh_C, Glyceraldehyde 3-phosphate dehydrogenase,
C-terminal domain. GAPDH is a tetrameric NAD-binding
enzyme involved in glycolysis and glyconeogenesis.
C-terminal domain is a mixed alpha/antiparallel beta
fold.
Length = 157
Score = 259 bits (663), Expect = 6e-88
Identities = 99/157 (63%), Positives = 117/157 (74%)
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
LAP KVL+ FGI KG MTT H+YT DQ+L+D SH+DLRR RAAA NI+PTSTGAAKAV
Sbjct: 1 LAPLAKVLNDNFGIEKGLMTTVHAYTADQKLVDPSHKDLRRGRAAAPNIIPTSTGAAKAV 60
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
LVLP LKGKL G+A RVPTPNVSVVDL V++ K EEVNAA +E+A+ LKGIL
Sbjct: 61 GLVLPELKGKLTGMAFRVPTPNVSVVDLTVELEKPVTVEEVNAALKEAAEGALKGILGYT 120
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWY 271
+EPLVS DF SS D+ T+V+ + VKV+AWY
Sbjct: 121 EEPLVSSDFVGDPHSSIFDAKATIVLNGNFVKVVAWY 157
>gnl|CDD|173322 PTZ00023, PTZ00023, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 337
Score = 264 bits (677), Expect = 1e-87
Identities = 122/266 (45%), Positives = 166/266 (62%), Gaps = 13/266 (4%)
Query: 39 RSSRLFLTATPSISPGG----------TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPT 88
+ +F P+ P G TGVF+ +E A H++ GAKKV+++AP K D P
Sbjct: 71 KKVHVFFEKDPAAIPWGKNGVDVVCESTGVFLTKEKAQAHLKGGAKKVIMSAPPKDDTPI 130
Query: 89 YVVGVNADAYKPDEPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDA 148
YV+GVN Y + I+SNASCTTNCLAP KV++ KFGI++G MTT H+ T +Q +D
Sbjct: 131 YVMGVNHTQYDKSQRIVSNASCTTNCLAPLAKVVNDKFGIVEGLMTTVHASTANQLTVDG 190
Query: 149 SHR---DLRRARAAALNIVPTSTGAAKAVALVLPALKGKLNGIALRVPTPNVSVVDLVVQ 205
+ D R R A +NI+P STGAAKAV V+P L GKL G+A RVP P+VSVVDL +
Sbjct: 191 PSKGGKDWRAGRCAGVNIIPASTGAAKAVGKVIPELNGKLTGMAFRVPVPDVSVVDLTCK 250
Query: 206 VSKKTFAEEVNAAFRESADNELKGILSVCDEPLVSVDFRCSDVSSTVDSSLTLVMGDDMV 265
++K EE+ AA +++A+ LKGIL D+ +VS DF SS D + + D V
Sbjct: 251 LAKPAKYEEIVAAVKKAAEGPLKGILGYTDDEVVSSDFVHDKRSSIFDVKAGIALNDTFV 310
Query: 266 KVIAWYDNEWGYSQRVVDLADIVANN 291
K+++WYDNEWGYS R++DLA +
Sbjct: 311 KLVSWYDNEWGYSNRLLDLAHYITQK 336
>gnl|CDD|169599 PRK08955, PRK08955, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 334
Score = 260 bits (665), Expect = 8e-86
Identities = 113/235 (48%), Positives = 156/235 (66%), Gaps = 2/235 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGD-IPTYVVGVNADAYKPDE-PIISNASCTTN 113
+GV + ++ G K+V++TAP K + + V+GVN + P PI++ ASCTTN
Sbjct: 96 SGVMKTKALLQAYLDQGVKRVVVTAPVKEEGVLNIVMGVNDHLFDPAIHPIVTAASCTTN 155
Query: 114 CLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKA 173
CLAP VKV+ +K GI G+MTT H T Q +LDA H+DLRRARA ++++PT+TG+A A
Sbjct: 156 CLAPVVKVIHEKLGIKHGSMTTIHDLTNTQTILDAPHKDLRRARACGMSLIPTTTGSATA 215
Query: 174 VALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSV 233
+ + P LKGKLNG A+RVP N S+ D V +V + T EEVNA +E+A+ ELKGIL
Sbjct: 216 ITEIFPELKGKLNGHAVRVPLANASLTDCVFEVERDTTVEEVNALLKEAAEGELKGILGY 275
Query: 234 CDEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIV 288
+ PLVS+D++ SS VD+ T+V+ VK+ AWYDNEWGY+ R +LA V
Sbjct: 276 EERPLVSIDYKTDPRSSIVDALSTMVVNGTQVKLYAWYDNEWGYANRTAELARKV 330
>gnl|CDD|236219 PRK08289, PRK08289, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 477
Score = 258 bits (661), Expect = 2e-83
Identities = 111/237 (46%), Positives = 151/237 (63%), Gaps = 4/237 (1%)
Query: 56 TGVFVDREGAGKHIQA-GAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNC 114
TG + D EG +H+++ G KVL+TAPGKGDI V GVN ++ I+S ASCTTN
Sbjct: 234 TGKWRDEEGLSQHLKSKGVAKVLLTAPGKGDIKNIVHGVNHSDITDEDKIVSAASCTTNA 293
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
+ P +K ++ K+GI+ G + T HSYT DQ L+D H+ RR R+A LN+V T TGAAKAV
Sbjct: 294 ITPVLKAVNDKYGIVNGHVETVHSYTNDQNLIDNYHKGDRRGRSAPLNMVITETGAAKAV 353
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRE-SADNELKGILSV 233
A LP L GKL G A+RVPTPNVS+ L + + K+T EE+N R+ S + L+ +
Sbjct: 354 AKALPELAGKLTGNAIRVPTPNVSMAILNLNLEKETSREELNEYLRQMSLHSPLQNQIDY 413
Query: 234 CDEP-LVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADIVA 289
D +VS DF S + VDS T+V G+ V + WYDNE+GYS +VV + + +A
Sbjct: 414 TDSTEVVSSDFVGSRHAGVVDSQATIVNGNRAV-LYVWYDNEFGYSCQVVRVMEQMA 469
>gnl|CDD|177912 PLN02272, PLN02272, glyceraldehyde-3-phosphate dehydrogenase.
Length = 421
Score = 252 bits (646), Expect = 6e-82
Identities = 120/230 (52%), Positives = 157/230 (68%), Gaps = 2/230 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNCL 115
+GVF E A H++ GAKKV+I+AP D P +VVGVN YKP+ I+SNASCTTNCL
Sbjct: 182 SGVFTTVEKASAHLKGGAKKVVISAP-SADAPMFVVGVNEKTYKPNMNIVSNASCTTNCL 240
Query: 116 APFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDA-SHRDLRRARAAALNIVPTSTGAAKAV 174
AP KV+ ++FGI++G MTT H+ T Q+ +D S +D R R A+ NI+P+STGAAKAV
Sbjct: 241 APLAKVVHEEFGILEGLMTTVHATTATQKTVDGPSMKDWRGGRGASQNIIPSSTGAAKAV 300
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
VLP L GKL G+A RVPTPNVSVVDL ++ K E+V AA + +++ LKGIL
Sbjct: 301 GKVLPELNGKLTGMAFRVPTPNVSVVDLTCRLEKSASYEDVKAAIKYASEGPLKGILGYT 360
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDL 284
DE +VS DF SS D+ + + +K+++WYDNEWGYS RV+DL
Sbjct: 361 DEDVVSNDFVGDSRSSIFDAKAGIGLSASFMKLVSWYDNEWGYSNRVLDL 410
>gnl|CDD|165999 PLN02358, PLN02358, glyceraldehyde-3-phosphate dehydrogenase.
Length = 338
Score = 244 bits (624), Expect = 1e-79
Identities = 122/230 (53%), Positives = 163/230 (70%), Gaps = 2/230 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNCL 115
TGVF D++ A H++ GAKKV+I+AP K D P +VVGVN YK D I+SNASCTTNCL
Sbjct: 103 TGVFTDKDKAAAHLKGGAKKVVISAPSK-DAPMFVVGVNEHEYKSDLDIVSNASCTTNCL 161
Query: 116 APFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDA-SHRDLRRARAAALNIVPTSTGAAKAV 174
AP KV++ +FGI++G MTT HS T Q+ +D S +D R RAA+ NI+P+STGAAKAV
Sbjct: 162 APLAKVINDRFGIVEGLMTTVHSITATQKTVDGPSMKDWRGGRAASFNIIPSSTGAAKAV 221
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
VLP+L GKL G++ RVPT +VSVVDL V++ K +E+ A +E ++ +LKGIL
Sbjct: 222 GKVLPSLNGKLTGMSFRVPTVDVSVVDLTVRLEKAATYDEIKKAIKEESEGKLKGILGYT 281
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDL 284
++ +VS DF + SS D+ + + D VK+++WYDNEWGYS RVVDL
Sbjct: 282 EDDVVSTDFVGDNRSSIFDAKAGIALSDKFVKLVSWYDNEWGYSSRVVDL 331
>gnl|CDD|184122 PRK13535, PRK13535, erythrose 4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 241 bits (617), Expect = 1e-78
Identities = 102/229 (44%), Positives = 140/229 (61%), Gaps = 1/229 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDI-PTYVVGVNADAYKPDEPIISNASCTTNC 114
TGV+ RE HI AGAKKVL + PG D+ T V GVN D + + I+SNASCTTNC
Sbjct: 99 TGVYGSREDGEAHIAAGAKKVLFSHPGSNDLDATVVYGVNHDQLRAEHRIVSNASCTTNC 158
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
+ P +K+LD FGI GT+TT HS DQ+++DA H DLRR RAA+ +I+P T A +
Sbjct: 159 IIPVIKLLDDAFGIESGTVTTIHSAMNDQQVIDAYHPDLRRTRAASQSIIPVDTKLAAGI 218
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
+ P + I++RVPT NV+ +DL V V K EVN +++A GI+
Sbjct: 219 TRIFPQFNDRFEAISVRVPTINVTAIDLSVTVKKPVKVNEVNQLLQKAAQGAFHGIVDYT 278
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVD 283
+ PLVS+DF S+ VD + T V G ++K + W DNEWG++ R++D
Sbjct: 279 ELPLVSIDFNHDPHSAIVDGTQTRVSGAHLIKTLVWCDNEWGFANRMLD 327
>gnl|CDD|185614 PTZ00434, PTZ00434, cytosolic glyceraldehyde 3-phosphate
dehydrogenase; Provisional.
Length = 361
Score = 235 bits (600), Expect = 9e-76
Identities = 122/241 (50%), Positives = 162/241 (67%), Gaps = 7/241 (2%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEP-IISNASCTTNC 114
TG+F D+ A H++ GAKKV+I+AP G T V+GVN Y P E ++SNASCTTNC
Sbjct: 112 TGLFTDKLAAEGHLKGGAKKVVISAPASGGAKTIVMGVNQHEYSPTEHHVVSNASCTTNC 171
Query: 115 LAPFVKVLDQK-FGIIKGTMTTTHSYTGDQRLLDA-SHRDLRRARAAALNIVPTSTGAAK 172
LAP V VL ++ FGI G MTT HSYT Q+ +D S +D R RAAA+NI+P++TGAAK
Sbjct: 172 LAPIVHVLTKEGFGIETGLMTTIHSYTATQKTVDGVSVKDWRGGRAAAVNIIPSTTGAAK 231
Query: 173 AVALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILS 232
AV +V+P+ KGKL G++ RVPTP+VSVVDL + ++ T +E++AA + ++ +KGIL
Sbjct: 232 AVGMVIPSTKGKLTGMSFRVPTPDVSVVDLTFRATRDTSIQEIDAAIKRASQTYMKGILG 291
Query: 233 VCDEPLVSVDFRCSDVSSTVDSSLTLVMG----DDMVKVIAWYDNEWGYSQRVVDLADIV 288
D+ LVS DF + SS DS TL K+++WYDNEWGYS RVVDL +
Sbjct: 292 FTDDELVSADFINDNRSSIYDSKATLQNNLPGERRFFKIVSWYDNEWGYSHRVVDLVRYM 351
Query: 289 A 289
A
Sbjct: 352 A 352
>gnl|CDD|130595 TIGR01532, E4PD_g-proteo, erythrose-4-phosphate dehydrogenase.
This model represents the small clade of dehydrogenases
in gamma-proteobacteria which utilize NAD+ to oxidize
erythrose-4-phosphate (E4P) to 4-phospho-erythronate, a
precursor for the de novo synthesis of pyridoxine via
4-hydroxythreonine and D-1-deoxyxylulose. This enzyme
activity appears to have evolved from
glyceraldehyde-3-phosphate dehydrogenase, whose
substrate differs only in the lack of one carbon
relative to E4P. Accordingly, this model is very close
to the corresponding models for GAPDH, and those
sequences which hit above trusted here invariably hit
between trusted and noise to the GAPDH model
(TIGR01534). Similarly, it may be found that there are
species outside of the gamma proteobacteria which
synthesize pyridoxine and have more than one aparrent
GAPDH gene of which one may have E4PD activity - this
may necessitate a readjustment of these models.
Alternatively, some of the GAPDH enzymes may prove to be
bifunctional in certain species [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridoxine].
Length = 325
Score = 231 bits (590), Expect = 1e-74
Identities = 106/229 (46%), Positives = 142/229 (62%), Gaps = 1/229 (0%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDI-PTYVVGVNADAYKPDEPIISNASCTTNC 114
TGV+ RE HI AGAKKVL + PG D+ T V GVN D + + I+SNASCTTNC
Sbjct: 97 TGVYGSREHGEAHIAAGAKKVLFSHPGASDLDATIVYGVNQDQLRAEHRIVSNASCTTNC 156
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDASHRDLRRARAAALNIVPTSTGAAKAV 174
+ P +K+LD +GI GT+TT HS DQ+++DA H DLRR RAA+ +I+P T A +
Sbjct: 157 IVPVIKLLDDAYGIESGTITTIHSAMNDQQVIDAYHPDLRRTRAASQSIIPVDTKLAAGI 216
Query: 175 ALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSVC 234
P + IA+RVPT NV+ +DL V V K A EVN +++A L+GI+
Sbjct: 217 ERFFPQFNDRFEAIAVRVPTVNVTAIDLSVTVKKPVKANEVNLLLQKAAQGALRGIVDYT 276
Query: 235 DEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVD 283
+ PLVSVDF S+ VD + T V G +VK + W DNEWG++ R++D
Sbjct: 277 ELPLVSVDFNHDPHSAIVDGTQTRVSGAHLVKTLVWCDNEWGFANRMLD 325
>gnl|CDD|185323 PRK15425, gapA, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 331
Score = 228 bits (582), Expect = 2e-73
Identities = 118/231 (51%), Positives = 159/231 (68%), Gaps = 2/231 (0%)
Query: 55 GTGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNC 114
TG+F+ E A KHI AGAKKV++T P K + P +V G N D Y + I+SNASCTTNC
Sbjct: 96 ATGLFLTDETARKHITAGAKKVVMTGPSKDNTPMFVKGANFDKYA-GQDIVSNASCTTNC 154
Query: 115 LAPFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDA-SHRDLRRARAAALNIVPTSTGAAKA 173
LAP KV++ FGII+G MTT H+ T Q+ +D SH+D R R A+ NI+P+STGAAKA
Sbjct: 155 LAPLAKVINDNFGIIEGLMTTVHATTATQKTVDGPSHKDWRGGRGASQNIIPSSTGAAKA 214
Query: 174 VALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILSV 233
V VLP L GKL G+A RVPTPNVSVVDL V++ K E++ AA + +A+ E+KG+L
Sbjct: 215 VGKVLPELNGKLTGMAFRVPTPNVSVVDLTVRLEKAATYEQIKAAVKAAAEGEMKGVLGY 274
Query: 234 CDEPLVSVDFRCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDL 284
++ +VS DF +S D+ + + D+ VK+++WYDNE GYS +V+DL
Sbjct: 275 TEDDVVSTDFNGEVCTSVFDAKAGIALNDNFVKLVSWYDNETGYSNKVLDL 325
>gnl|CDD|215675 pfam00044, Gp_dh_N, Glyceraldehyde 3-phosphate dehydrogenase, NAD
binding domain. GAPDH is a tetrameric NAD-binding
enzyme involved in glycolysis and glyconeogenesis.
N-terminal domain is a Rossmann NAD(P) binding fold.
Length = 148
Score = 99.1 bits (248), Expect = 8e-26
Identities = 31/54 (57%), Positives = 40/54 (74%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNAS 109
TGVF E A H++AGAKKV+I+AP K D PT+V GVN + Y P++ I+SNAS
Sbjct: 95 TGVFTTAEKAEAHLKAGAKKVIISAPAKDDDPTFVYGVNHEDYDPEDDIVSNAS 148
>gnl|CDD|173546 PTZ00353, PTZ00353, glycosomal glyceraldehyde-3-phosphate
dehydrogenase; Provisional.
Length = 342
Score = 103 bits (258), Expect = 1e-25
Identities = 65/241 (26%), Positives = 114/241 (47%), Gaps = 15/241 (6%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASCTTNCL 115
TG++ R H+ GAK V + A D PT + G N + P+ + L
Sbjct: 100 TGLYSTRSRCWGHVTGGAKGVFV-AGQSADAPTVMAGSNDERLSASLPVCCAGAPIAVAL 158
Query: 116 APFVKVLDQKFGIIKGTMTTTHSYTGDQRLLDA---SHRDLRRARAAALNIVPTSTGAAK 172
AP ++ L + +G+ + + T H Q + A + +D R+ R A I P A+
Sbjct: 159 APVIRALHEVYGVEECSYTAIHG-MQPQEPIAARSKNSQDWRQTRVAIDAIAPYRDNGAE 217
Query: 173 AVALVLPALKGKLNGIALRVPTPNVSVVDLVVQVSKKTFAEEVNAAFRESADNELKGILS 232
V +LP L G+++G A +VP +D++V+ + E V++A E+A + L G+L
Sbjct: 218 TVCKLLPHLVGRISGSAFQVPVKKGCAIDMLVRTKQPVSKEVVDSALAEAASDRLNGVLC 277
Query: 233 VCDEPLVSVDF-----RCSDVSSTVDSSLTLVMGDDMVKVIAWYDNEWGYSQRVVDLADI 287
+ ++SVD C D +S+ SS ++ K++ W+D E Y+ R++ L
Sbjct: 278 ISKRDMISVDCIPNGKLCYDATSS--SSSR---EGEVHKMVLWFDVECYYAARLLSLVKQ 332
Query: 288 V 288
+
Sbjct: 333 L 333
>gnl|CDD|214851 smart00846, Gp_dh_N, Glyceraldehyde 3-phosphate dehydrogenase, NAD
binding domain. GAPDH is a tetrameric NAD-binding
enzyme involved in glycolysis and glyconeogenesis.
N-terminal domain is a Rossmann NAD(P) binding fold.
Length = 149
Score = 91.1 bits (227), Expect = 1e-22
Identities = 32/55 (58%), Positives = 39/55 (70%)
Query: 56 TGVFVDREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNADAYKPDEPIISNASC 110
TG F RE A H++AGAKKV+I+AP K PT+V GVN D Y ++ IISNASC
Sbjct: 95 TGGFTTREKASAHLKAGAKKVIISAPSKDADPTFVYGVNHDEYDGEDHIISNASC 149
>gnl|CDD|223214 COG0136, Asd, Aspartate-semialdehyde dehydrogenase [Amino acid
transport and metabolism].
Length = 334
Score = 36.8 bits (86), Expect = 0.009
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 85 DIPTYVVGVNADA---YKPDEPIISNASCTTNCLAPFVKVLDQKFGI 128
D+P V VN + Y+ II+N +C+T L +K L FGI
Sbjct: 105 DVPLVVPEVNPEHLIDYQKRGFIIANPNCSTIQLVLALKPLHDAFGI 151
>gnl|CDD|237845 PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase;
Provisional.
Length = 334
Score = 35.1 bits (82), Expect = 0.030
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 85 DIPTYVVGVNADAYK--PDEPIISNASCTTNCLAPFVKVLDQKFGI 128
D+P V VN +A + II+N +C+T + +K L GI
Sbjct: 102 DVPLVVPEVNPEALAEHRKKGIIANPNCSTIQMVVALKPLHDAAGI 147
>gnl|CDD|233347 TIGR01296, asd_B, aspartate-semialdehyde dehydrogenase
(peptidoglycan organisms). Two closely related families
of aspartate-semialdehyde dehydrogenase are found. They
differ by a deep split in phylogenetic and percent
identity trees and in gap patterns. This model
represents a branch more closely related to the USG-1
protein than to the other aspartate-semialdehyde
dehydrogenases represented in model TIGR00978 [Amino
acid biosynthesis, Aspartate family].
Length = 338
Score = 34.0 bits (78), Expect = 0.078
Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 85 DIPTYVVGVNA--DAYKPDEPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTG 141
D+P V VN + II+N +C+T + +K L + I + ++T + +G
Sbjct: 100 DVPLVVPEVNFEDLKEFNPKGIIANPNCSTIQMVVVLKPLHDEAKIKRVVVSTYQAVSG 158
>gnl|CDD|177348 PHA02106, PHA02106, hypothetical protein.
Length = 91
Score = 29.7 bits (66), Expect = 0.44
Identities = 7/17 (41%), Positives = 11/17 (64%)
Query: 266 KVIAWYDNEWGYSQRVV 282
K + WY+ EW Y + +V
Sbjct: 10 KAVKWYEQEWYYGKWIV 26
>gnl|CDD|227267 COG4930, COG4930, Predicted ATP-dependent Lon-type protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 683
Score = 29.1 bits (65), Expect = 3.1
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 16 TPPSASLKPMLNQLVLMASLLMARSSRLFLTATPSISPGGT-GVFVDREGAGK-HIQAGA 73
T PS + L L+ + S+L+A+ + + S++ GG D + + +GA
Sbjct: 583 TGPSTATS--LAALIALCSVLLAKPVQEQMVVLGSMTLGGVINPVQDLAASLQLAFDSGA 640
Query: 74 KKVLITAPGKGDIPT 88
KKVL+ DIPT
Sbjct: 641 KKVLLPMSSAVDIPT 655
>gnl|CDD|147328 pfam05095, DUF687, Protein of unknown function (DUF687). This
family contains several uncharacterized Chlamydia
proteins.
Length = 542
Score = 28.9 bits (65), Expect = 3.5
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 143 QRLLDASHRDLRRARAAALNIVPTSTGAAKAVA--LVLPALKGKLNGIALRVP 193
R L S + RR + L S GA V LVL G LNGI+L++P
Sbjct: 415 LRRLTGSTLEQRRVVRSQLAARRGSIGALSTVCGGLVLALFIGILNGISLQLP 467
>gnl|CDD|221415 pfam12083, DUF3560, Domain of unknown function (DUF3560). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is about 120
amino acids in length. This domain has a conserved GHHSE
sequence motif.
Length = 127
Score = 27.3 bits (61), Expect = 5.0
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 137 HSYTGDQRLLDASHRDLRRARAA 159
HS +R ++ H + +A A
Sbjct: 50 HSERRHRRDIERIHNTMGKAVEA 72
>gnl|CDD|237329 PRK13278, purP,
5-formaminoimidazole-4-carboxamide-1-(beta)-D-
ribofuranosyl 5'-monophosphate synthetase; Provisional.
Length = 358
Score = 28.3 bits (64), Expect = 5.0
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 2/44 (4%)
Query: 54 GGTGVFV--DREGAGKHIQAGAKKVLITAPGKGDIPTYVVGVNA 95
GG G F+ E + I ++ LIT + I YVVGV
Sbjct: 161 GGRGYFIAKSPEEFKEKIDKLIERGLITEVEEAIIQEYVVGVPY 204
>gnl|CDD|181541 PRK08727, PRK08727, hypothetical protein; Validated.
Length = 233
Score = 27.9 bits (62), Expect = 5.9
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 155 RARAAALNIVPTSTGAAKAVALVLPALKGKL 185
RARAA + ++ T+ +ALVLP L+ +L
Sbjct: 121 RARAAGITLLYTARQMPDGLALVLPDLRSRL 151
>gnl|CDD|132488 TIGR03447, mycothiol_MshC, cysteine--1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase. Members
of this protein family are MshC,
l-cysteine:1-D-myo-inosityl
2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an
enzyme that uses ATP to ligate a Cys residue to a
mycothiol precursor molecule, in the second to last step
in mycothiol biosynthesis. This enzyme shows
considerable homology to Cys--tRNA ligases, and many
instances are misannotated as such. Mycothiol is found
in Mycobacterium tuberculosis, Corynebacterium
glutamicum, Streptomyces coelicolor, and various other
members of the Actinobacteria. Mycothiol is an analog to
glutathione [Biosynthesis of cofactors, prosthetic
groups, and carriers, Glutathione and analogs].
Length = 411
Score = 28.2 bits (63), Expect = 6.3
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 142 DQRLLDASHRDLRRARAAALNIVPTS--TGAAKAVALVLPALKGKL-NGIALRVPTP 195
D R L S DL R AL ++P GA +++ V+ ++ L +G A V P
Sbjct: 98 DWRELGTSQIDLFREDMEALRVLPPRDYIGAVESIDEVVEMVEKLLASGAAYIVEGP 154
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 0.130 0.373
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,622,671
Number of extensions: 1394299
Number of successful extensions: 1320
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1291
Number of HSP's successfully gapped: 40
Length of query: 293
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 197
Effective length of database: 6,679,618
Effective search space: 1315884746
Effective search space used: 1315884746
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 (26.4 bits)