RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 024349
(269 letters)
>gnl|CDD|215131 PLN02237, PLN02237, glyceraldehyde-3-phosphate dehydrogenase B.
Length = 442
Score = 437 bits (1125), Expect = e-154
Identities = 214/255 (83%), Positives = 230/255 (90%), Gaps = 9/255 (3%)
Query: 3 SHSALAPSRIPAITRIPSKTTHSFPTQCSTKRLDVAEFAGLRANAGATYATGARDASFFD 62
+H+ALA SRIPA TR+PSK +H KRL+VAEF+GLRA++ T+A AR+ASFFD
Sbjct: 1 THAALASSRIPATTRLPSKASH--------KRLEVAEFSGLRASSCVTFAKNAREASFFD 52
Query: 63 AVTAQLTPKVAAGSVPVKKETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG 122
V +QL PK AGS PV+ ETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG
Sbjct: 53 VVASQLAPK-VAGSTPVRGETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG 111
Query: 123 GVKNASHLLKYDSLLGTFKADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIE 182
GVKNASHLLKYDS+LGTFKADVKIVD+ETISVDGK IKVVSNRDPL+LPWAELGIDIVIE
Sbjct: 112 GVKNASHLLKYDSMLGTFKADVKIVDDETISVDGKPIKVVSNRDPLKLPWAELGIDIVIE 171
Query: 183 GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTT 242
GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNE DYDHEVANIVSNASCTT
Sbjct: 172 GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEDDYDHEVANIVSNASCTT 231
Query: 243 NCLAPFVKVMDEELG 257
NCLAPFVKV+DEE G
Sbjct: 232 NCLAPFVKVLDEEFG 246
>gnl|CDD|215572 PLN03096, PLN03096, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 395
Score = 328 bits (843), Expect = e-112
Identities = 146/221 (66%), Positives = 171/221 (77%), Gaps = 6/221 (2%)
Query: 37 VAEFAGLRANAGATYATGARDASFFDAVTAQLTPKVAAGSVPVKKETVAKLKVAINGFGR 96
+EF+GL++++ T+ + T V++ + T AK+KVAINGFGR
Sbjct: 15 FSEFSGLKSSSAVTFGKRSDS----LDFVVFATSAVSSSGGARRAVTEAKIKVAINGFGR 70
Query: 97 IGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIVDNETISVDG 156
IGRNFLRCWHGRKDSPLDVV +ND+GGVK ASHLLKYDS LGTF ADVK V ++ ISVDG
Sbjct: 71 IGRNFLRCWHGRKDSPLDVVAINDTGGVKQASHLLKYDSTLGTFDADVKPVGDDAISVDG 130
Query: 157 KLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIP 216
K+IKVVS+R+PL LPW ELGID+VIEGTGVFVD GAGKHIQAGAKKV+ITAP KG DIP
Sbjct: 131 KVIKVVSDRNPLNLPWGELGIDLVIEGTGVFVDREGAGKHIQAGAKKVLITAPGKG-DIP 189
Query: 217 TYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
TYVVGVN DY H I+SNASCTTNCLAPFVKV+D++ G
Sbjct: 190 TYVVGVNADDYKHS-DPIISNASCTTNCLAPFVKVLDQKFG 229
>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 337
Score = 249 bits (638), Expect = 3e-82
Identities = 109/171 (63%), Positives = 134/171 (78%), Gaps = 1/171 (0%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
++VAINGFGRIGRNFLRCW GR++S L++V +ND+ + +HLLKYDS+LG AD+
Sbjct: 2 IRVAINGFGRIGRNFLRCWLGRENSQLELVAINDTSDPRTNAHLLKYDSMLGKLNADISA 61
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
+N +I+V+GK IK VS+R+PL LPW E GID++IE TGVFV GA KHIQAGAKKV+I
Sbjct: 62 DEN-SITVNGKTIKCVSDRNPLNLPWKEWGIDLIIESTGVFVTKEGASKHIQAGAKKVLI 120
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
TAP KG DI TYVVGVN +YDHE NI+SNASCTTNCLAP KV+ + G
Sbjct: 121 TAPGKGEDIGTYVVGVNHHEYDHEDHNIISNASCTTNCLAPIAKVLHDNFG 171
>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 = 221 bits (565), Expect = 3e-71
Identities = 87/171 (50%), Positives = 113/171 (66%), Gaps = 4/171 (2%)
Query: 88 KVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKIV 147
KV INGFGRIGR LR + + L+VV +ND ++ ++LLKYDS+ G F+ +V
Sbjct: 1 KVGINGFGRIGRLVLRAILEKPGNDLEVVAINDLTDLEYLAYLLKYDSVHGRFEGEVTAD 60
Query: 148 DNETISVDGKLIKVVSN-RDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
++ + V+GK + V + RDP LPW LG+DIVIE TG F D H++AGAKKV+I
Sbjct: 61 ED-GLVVNGKEVISVFSERDPSDLPWKALGVDIVIECTGKFRDKEKLEGHLEAGAKKVLI 119
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+AP+KG D+ T V GVN +YD IVSNASCTTNCLAP KV+DE G
Sbjct: 120 SAPSKG-DVKTIVYGVNHDEYDPSER-IVSNASCTTNCLAPLAKVLDEAFG 168
>gnl|CDD|236079 PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 343
Score = 216 bits (552), Expect = 4e-69
Identities = 93/178 (52%), Positives = 122/178 (68%), Gaps = 4/178 (2%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
K KVAINGFGRIGR R K+S ++V +N S + +HL+KYD++ G F V+
Sbjct: 2 KTKVAINGFGRIGRMVFR--KAIKESAFEIVAINASYPSETLAHLIKYDTVHGKFDGTVE 59
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVI 205
+ + + VDGK I++++NRDP +LPW +LGIDIVIE TG F A H++AGAKKVI
Sbjct: 60 AFE-DHLLVDGKKIRLLNNRDPKELPWTDLGIDIVIEATGKFNSKEKAILHVEAGAKKVI 118
Query: 206 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGKQSDLL 263
+TAP K D+ T VVGVNE D E I+SNASCTTNCLAP VKV+DE+ G ++ L+
Sbjct: 119 LTAPGKNEDV-TIVVGVNEDQLDIEKHTIISNASCTTNCLAPVVKVLDEQFGIENGLM 175
>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 = 208 bits (531), Expect = 2e-68
Identities = 84/153 (54%), Positives = 107/153 (69%), Gaps = 5/153 (3%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGR LR + D L+VV +ND + ++LLKYDS+ G F +V+
Sbjct: 1 IKVGINGFGRIGRLVLRAALAQDD--LEVVAINDLTDPETLAYLLKYDSVHGRFDGEVE- 57
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
VD + + V+GK IKV + RDP +LPW ELG+DIV+E TGVF A H++AGAKKVII
Sbjct: 58 VDEDGLIVNGKKIKVFAERDPAELPWGELGVDIVVESTGVFTTAEKAEAHLKAGAKKVII 117
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNAS 239
+APAK D PT+V GVN +DYD E +IVSNAS
Sbjct: 118 SAPAKD-DDPTFVYGVNHEDYDPE-DDIVSNAS 148
>gnl|CDD|223135 COG0057, GapA, Glyceraldehyde-3-phosphate
dehydrogenase/erythrose-4-phosphate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 335
Score = 210 bits (538), Expect = 6e-67
Identities = 89/173 (51%), Positives = 114/173 (65%), Gaps = 5/173 (2%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVK 145
+KVAINGFGRIGR R R ++VV +ND +HLLKYDS+ G F +V+
Sbjct: 1 MIKVAINGFGRIGRLVARAALERDGD-IEVVAINDLTDPDYLAHLLKYDSVHGRFDGEVE 59
Query: 146 IVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQA-GAKKV 204
V ++ + V+GK IKV++ RDP LPWA+LG+DIV+E TG F A KH++A GAKKV
Sbjct: 60 -VKDDALVVNGKGIKVLAERDPANLPWADLGVDIVVECTGKFTGREKAEKHLKAGGAKKV 118
Query: 205 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+I+AP K D+ T V GVN YD IVSNASCTTNCLAP KV+++ G
Sbjct: 119 LISAPGKD-DVATVVYGVNHNYYDAG-HTIVSNASCTTNCLAPVAKVLNDAFG 169
>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 = 199 bits (508), Expect = 6e-65
Identities = 81/154 (52%), Positives = 105/154 (68%), Gaps = 5/154 (3%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGR LR R D ++VV +ND + ++LLKYDS+ G F V+
Sbjct: 1 IKVGINGFGRIGRLVLRAALERPD--VEVVAINDLTDPEYLAYLLKYDSVHGRFPGTVE- 57
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
V+ + + V+GK IKV + RDP LPW ELG+DIV+E TG F A H++AGAKKVII
Sbjct: 58 VEGDGLVVNGKAIKVFAERDPANLPWGELGVDIVVECTGGFTTREKASAHLKAGAKKVII 117
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASC 240
+AP+K AD PT+V GVN +YD E +I+SNASC
Sbjct: 118 SAPSKDAD-PTFVYGVNHDEYDGE-DHIISNASC 149
>gnl|CDD|177912 PLN02272, PLN02272, glyceraldehyde-3-phosphate dehydrogenase.
Length = 421
Score = 187 bits (477), Expect = 5e-57
Identities = 99/254 (38%), Positives = 138/254 (54%), Gaps = 12/254 (4%)
Query: 5 SALAPSRIPAITRIPSKTTHSFPTQCSTKRLDVAEFAGLRANAGATYATGARDASFFDAV 64
+A AP+ + S ++ ++ + + + AR A
Sbjct: 10 AATAPAAAARGSDFSSSSSDPSKVSSVGFSSSLSFSGSSSGASSSLQSCSARSVQPIKAT 69
Query: 65 TAQLTPKVAAGSVPVKKETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG-G 123
+ P V +K + K K+ INGFGRIGR LR R D ++VV VND
Sbjct: 70 ATEAPPAV------LKSSSSGKTKIGINGFGRIGRLVLRIATSRDD--IEVVAVNDPFID 121
Query: 124 VKNASHLLKYDSLLGTFKADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEG 183
K +++ KYDS G FK + +VD+ T+ ++GK IKV S RDP ++PW + G + V+E
Sbjct: 122 AKYMAYMFKYDSTHGNFKGTINVVDDSTLEINGKQIKVTSKRDPAEIPWGDFGAEYVVES 181
Query: 184 TGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTN 243
+GVF A H++ GAKKV+I+AP+ AD P +VVGVNEK Y + NIVSNASCTTN
Sbjct: 182 SGVFTTVEKASAHLKGGAKKVVISAPS--ADAPMFVVGVNEKTYKPNM-NIVSNASCTTN 238
Query: 244 CLAPFVKVMDEELG 257
CLAP KV+ EE G
Sbjct: 239 CLAPLAKVVHEEFG 252
>gnl|CDD|184122 PRK13535, PRK13535, erythrose 4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 157 bits (398), Expect = 3e-46
Identities = 76/177 (42%), Positives = 107/177 (60%), Gaps = 7/177 (3%)
Query: 87 LKVAINGFGRIGRNFLRCWH--GRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADV 144
++VAINGFGRIGRN LR + GR+ + VV +N+ + +HLLKYD+ G F DV
Sbjct: 2 IRVAINGFGRIGRNVLRALYESGRRAE-ITVVAINELADAEGMAHLLKYDTSHGRFAWDV 60
Query: 145 KIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKV 204
+ + + + V I+++ RD LPW ELG+D+V++ TGV+ HI AGAKKV
Sbjct: 61 R-QERDQLFVGDDAIRLLHERDIASLPWRELGVDVVLDCTGVYGSREDGEAHIAAGAKKV 119
Query: 205 IITAPAKGADI-PTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGKQS 260
+ + P D+ T V GVN E IVSNASCTTNC+ P +K++D+ G +S
Sbjct: 120 LFSHPG-SNDLDATVVYGVNHDQLRAE-HRIVSNASCTTNCIIPVIKLLDDAFGIES 174
>gnl|CDD|173322 PTZ00023, PTZ00023, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 337
Score = 154 bits (390), Expect = 5e-45
Identities = 78/171 (45%), Positives = 107/171 (62%), Gaps = 6/171 (3%)
Query: 88 KVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDS-GGVKNASHLLKYDSLLGTFKADVKI 146
K+ INGFGRIGR R R+D ++VV +ND + +LLKYDS+ G+ A+V +
Sbjct: 4 KLGINGFGRIGRLVFRAALERED--VEVVAINDPFMTLDYMCYLLKYDSVHGSLPAEVSV 61
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
D + + K + V +DP +PW + G+D+V E TGVF+ A H++ GAKKVI+
Sbjct: 62 TD-GFLMIGSKKVHVFFEKDPAAIPWGKNGVDVVCESTGVFLTKEKAQAHLKGGAKKVIM 120
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+AP K D P YV+GVN YD IVSNASCTTNCLAP KV++++ G
Sbjct: 121 SAPPKD-DTPIYVMGVNHTQYDKSQR-IVSNASCTTNCLAPLAKVVNDKFG 169
>gnl|CDD|185323 PRK15425, gapA, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 331
Score = 142 bits (359), Expect = 2e-40
Identities = 80/171 (46%), Positives = 108/171 (63%), Gaps = 6/171 (3%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+KV INGFGRIGR R R D +++V +ND +++LKYDS G F V++
Sbjct: 3 IKVGINGFGRIGRIVFRAAQKRSD--IEIVAINDLLDADYMAYMLKYDSTHGRFDGTVEV 60
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
D I V+GK I+V + RDP L W E+G+D+V E TG+F+ A KHI AGAKKV++
Sbjct: 61 KDGHLI-VNGKKIRVTAERDPANLKWDEVGVDVVAEATGLFLTDETARKHITAGAKKVVM 119
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
T P+K + P +V G N Y + +IVSNASCTTNCLAP KV+++ G
Sbjct: 120 TGPSKD-NTPMFVKGANFDKYAGQ--DIVSNASCTTNCLAPLAKVINDNFG 167
>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 = 141 bits (357), Expect = 2e-40
Identities = 73/174 (41%), Positives = 102/174 (58%), Gaps = 3/174 (1%)
Query: 88 KVAINGFGRIGRNFLRCWHGR-KDSPLDVVVVNDSGGVKNASHLLKYDSLLGTFKADVKI 146
+VAINGFGRIGRN LR + + + + VV +N+ +HLLKYD+ G F +V+
Sbjct: 1 RVAINGFGRIGRNVLRALYESGRRAEITVVAINELADAAGMAHLLKYDTSHGRFAWEVR- 59
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
D + + V I+V+ R LPW ELG+D+V++ TGV+ HI AGAKKV+
Sbjct: 60 QDRDQLFVGDDAIRVLHERSLQSLPWRELGVDLVLDCTGVYGSREHGEAHIAAGAKKVLF 119
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGKQS 260
+ P T V GVN+ E IVSNASCTTNC+ P +K++D+ G +S
Sbjct: 120 SHPGASDLDATIVYGVNQDQLRAE-HRIVSNASCTTNCIVPVIKLLDDAYGIES 172
>gnl|CDD|165999 PLN02358, PLN02358, glyceraldehyde-3-phosphate dehydrogenase.
Length = 338
Score = 141 bits (357), Expect = 3e-40
Identities = 82/186 (44%), Positives = 119/186 (63%), Gaps = 8/186 (4%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG-GVKNASHLLKYDSLLGTFK-AD 143
K+++ INGFGRIGR R R D +++V VND + +++ KYDS+ G +K +
Sbjct: 5 KIRIGINGFGRIGRLVARVVLQRDD--VELVAVNDPFITTEYMTYMFKYDSVHGQWKHHE 62
Query: 144 VKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKK 203
+K+ D++T+ K + V R+P +PW E G D V+E TGVF D A H++ GAKK
Sbjct: 63 LKVKDDKTLLFGEKPVTVFGIRNPEDIPWGEAGADFVVESTGVFTDKDKAAAHLKGGAKK 122
Query: 204 VIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGKQSDLL 263
V+I+AP+K D P +VVGVNE +Y ++ +IVSNASCTTNCLAP KV+++ G L+
Sbjct: 123 VVISAPSK--DAPMFVVGVNEHEYKSDL-DIVSNASCTTNCLAPLAKVINDRFGIVEGLM 179
Query: 264 ND-HSV 268
HS+
Sbjct: 180 TTVHSI 185
>gnl|CDD|185614 PTZ00434, PTZ00434, cytosolic glyceraldehyde 3-phosphate
dehydrogenase; Provisional.
Length = 361
Score = 139 bits (350), Expect = 6e-39
Identities = 82/191 (42%), Positives = 117/191 (61%), Gaps = 13/191 (6%)
Query: 85 AKLKVAINGFGRIGRNFLR--CWHGRKDSPLDVVVVND-SGGVKNASHLLKYDSLLGTFK 141
A +KV INGFGRIGR + C G + +DVV V D S + ++ +KYD++ G K
Sbjct: 2 APIKVGINGFGRIGRMVFQAICDQGLIGTEIDVVAVVDMSTNAEYFAYQMKYDTVHGRPK 61
Query: 142 ADVK-------IVDNETISVDGKLIKVV-SNRDPLQLPWAELGIDIVIEGTGVFVDGPGA 193
V+ + ++ + V+G IK V + R+P LPW +LG+D VIE TG+F D A
Sbjct: 62 YTVETTKSSPSVKTDDVLVVNGHRIKCVKAQRNPADLPWGKLGVDYVIESTGLFTDKLAA 121
Query: 194 GKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMD 253
H++ GAKKV+I+APA G T V+GVN+ +Y ++VSNASCTTNCLAP V V+
Sbjct: 122 EGHLKGGAKKVVISAPASGG-AKTIVMGVNQHEYSPTEHHVVSNASCTTNCLAPIVHVLT 180
Query: 254 EE-LGKQSDLL 263
+E G ++ L+
Sbjct: 181 KEGFGIETGLM 191
>gnl|CDD|169599 PRK08955, PRK08955, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 334
Score = 132 bits (334), Expect = 8e-37
Identities = 68/173 (39%), Positives = 100/173 (57%), Gaps = 6/173 (3%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSGG-VKNASHLLKYDSLLGTFKADV 144
+KV INGFGRIGR LR + L+ V +ND G +HLL++DS+ G + +V
Sbjct: 2 TIKVGINGFGRIGRLALRAAWDWPE--LEFVQINDPAGDAATLAHLLEFDSVHGRWHHEV 59
Query: 145 KIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKV 204
+ + I ++GK I+ N+ W+ G D+VIE +GV ++ G K+V
Sbjct: 60 -TAEGDAIVINGKRIRTTQNKAIADTDWS--GCDVVIEASGVMKTKALLQAYLDQGVKRV 116
Query: 205 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
++TAP K + V+GVN+ +D + IV+ ASCTTNCLAP VKV+ E+LG
Sbjct: 117 VVTAPVKEEGVLNIVMGVNDHLFDPAIHPIVTAASCTTNCLAPVVKVIHEKLG 169
>gnl|CDD|236219 PRK08289, PRK08289, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 477
Score = 125 bits (317), Expect = 2e-33
Identities = 65/189 (34%), Positives = 95/189 (50%), Gaps = 32/189 (16%)
Query: 89 VAINGFGRIGR-------------NFLRCWHGRKDSPLDVVVVNDSGG---VKNASHLLK 132
V + GFGRIGR N LR L +VV K AS LL+
Sbjct: 130 VVLYGFGRIGRLLARLLIEKTGGGNGLR---------LRAIVVRKGSEGDLEKRAS-LLR 179
Query: 133 YDSLLGTFKADVKI-VDNETISVDGKLIKVVSNRDPLQLPWAELGID--IVIEGTGVFVD 189
DS+ G F + + +N I +G I+V+ P ++ + GI+ +V++ TG + D
Sbjct: 180 RDSVHGPFNGTITVDEENNAIIANGNYIQVIYANSPEEVDYTAYGINNALVVDNTGKWRD 239
Query: 190 GPGAGKHIQA-GAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPF 248
G +H+++ G KV++TAP KG DI V GVN D E IVS ASCTTN + P
Sbjct: 240 EEGLSQHLKSKGVAKVLLTAPGKG-DIKNIVHGVNHSDITDED-KIVSAASCTTNAITPV 297
Query: 249 VKVMDEELG 257
+K ++++ G
Sbjct: 298 LKAVNDKYG 306
>gnl|CDD|173546 PTZ00353, PTZ00353, glycosomal glyceraldehyde-3-phosphate
dehydrogenase; Provisional.
Length = 342
Score = 62.6 bits (152), Expect = 2e-11
Identities = 45/171 (26%), Positives = 82/171 (47%), Gaps = 7/171 (4%)
Query: 89 VAINGFGRIGRNFLRCWHGRKDSPLDVVVVND-SGGVKNASHLLKYDS-LLGTFKADVKI 146
V INGFG +G+ L + D + VV VND S + +++L+ +S L A +++
Sbjct: 5 VGINGFGPVGKAVL--FASLTDPLVTVVAVNDASVSIAYIAYVLEQESPLSAPDGASIRV 62
Query: 147 VDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII 206
V + + + I+V + D +++ W + G+ V+E TG++ H+ GAK V +
Sbjct: 63 VGEQIVLNGTQKIRVSAKHDLVEIAWRDYGVQYVVECTGLYSTRSRCWGHVTGGAKGVFV 122
Query: 207 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
+ AD PT + G N++ + + LAP ++ + E G
Sbjct: 123 A--GQSADAPTVMAGSNDERLS-ASLPVCCAGAPIAVALAPVIRALHEVYG 170
>gnl|CDD|223536 COG0460, ThrA, Homoserine dehydrogenase [Amino acid transport and
metabolism].
Length = 333
Score = 31.8 bits (73), Expect = 0.31
Identities = 24/130 (18%), Positives = 45/130 (34%), Gaps = 27/130 (20%)
Query: 86 KLKVAINGFGRIGRNFLRCWHGRKDS-----PLDVVVVNDSGGVKNASHLLKYDSLLGTF 140
+KV + G G +G L +++ +++ VV V + L
Sbjct: 3 TVKVGLLGLGTVGSGVLEILAEKQEELRKRAGIEIRVV----AVADRDGSLVR------- 51
Query: 141 KADVKIVDNETISVDGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQA- 199
D+ +++ E + DG L + ID+V+E G V+
Sbjct: 52 --DLDLLNAEVWTTDGALSLGDEVLL-------DEDIDVVVELVGGDVEPAEPADLYLKA 102
Query: 200 -GAKKVIITA 208
K ++TA
Sbjct: 103 LENGKHVVTA 112
>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 = 31.7 bits (72), Expect = 0.40
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 214 DIPTYVVGVNEKD-YDHEVANIVSNASCTTNCLAPFVKVMDEELG 257
D+P V VN +D + I++N +C+T + +K + +E
Sbjct: 100 DVPLVVPEVNFEDLKEFNPKGIIANPNCSTIQMVVVLKPLHDEAK 144
>gnl|CDD|236551 PRK09533, PRK09533, bifunctional transaldolase/phosoglucose
isomerase; Validated.
Length = 948
Score = 30.7 bits (70), Expect = 0.91
Identities = 26/67 (38%), Positives = 34/67 (50%), Gaps = 11/67 (16%)
Query: 36 DVAE--FAGL--RANAGATYATGARDASFF-----DAVTAQLTPKVAAGSVPVKKETVAK 86
+VAE +GL RA G + A ASFF AV +L K+AA + P +K +
Sbjct: 174 EVAEAYISGLEARAAKGGDPSHVASVASFFVSRIDSAVDKRLDEKIAAANDPAEKAALEA 233
Query: 87 L--KVAI 91
L KVAI
Sbjct: 234 LKGKVAI 240
>gnl|CDD|236903 PRK11380, PRK11380, hypothetical protein; Provisional.
Length = 353
Score = 29.5 bits (66), Expect = 1.8
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 12/80 (15%)
Query: 117 VVNDSGGVKNASHLLKYDSLLGTFKADVKIVDNETISVDGKLIKV-----------VSNR 165
+ + G HLL D TFKA+++ + I++ KL S +
Sbjct: 178 IEDSEGYCALMEHLLSGDHGANTFKANMEEAPEQMIALLAKLAVFPSDYISDCANHSSGK 237
Query: 166 DPLQLPWA-ELGIDIVIEGT 184
P +L WA +L I + T
Sbjct: 238 SPAKLIWAADLSWMISLSRT 257
>gnl|CDD|193596 cd09982, LOTUS_6_Limkain_b1, The sixth LOTUS domain on Limkain
b1(LKAP). The sixth LOTUS domain on Limkain b1(LKAP):
Limkain b1 is a novel human autoantigen, localized to a
subset of ABCD3 and PXF marked peroxisomes. Limkain b1
may be a relatively common target of human
autoantibodies reactive to cytoplasmic vesicle-like
structures. The protein contains multiple copies of
LOTUS domains and a conserved RNA recognition motif.
The exact molecular function of LOTUS domain remains to
be identified. Its occurrence in proteins associated
with RNA metabolism suggests that it might be involved
in RNA binding function. The presence of several basic
residues and RNA fold recognition motifs support this
hypothesis. The RNA binding function might be the first
step of regulating mRNA translation or localization.
Length = 71
Score = 26.8 bits (59), Expect = 3.5
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 6/38 (15%)
Query: 225 KDYDHEVANIVSNASCTTNCLAPFVKVMDEELGKQSDL 262
+DYD VS+ L VKV+D E GKQ L
Sbjct: 40 QDYD------VSSVPALMQKLCHVVKVVDTESGKQIQL 71
>gnl|CDD|233700 TIGR02053, MerA, mercuric reductase. This model represents the
mercuric reductase found in the mer operon for the
detoxification of mercury compounds. MerA is a
FAD-containing flavoprotein which reduces Hg(II) to
Hg(0) utilizing NADPH [Cellular processes,
Detoxification].
Length = 463
Score = 28.2 bits (63), Expect = 5.1
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 12/61 (19%)
Query: 173 AELGIDIVIEGTGVFVDGP----GAGKHIQAGAKKVIITAPAKGA--DIPTYVVGVNEKD 226
+ G+D + G F D G+ ++ GAK+ +I A+ A IP G+ E
Sbjct: 99 SSYGVDY-LRGRARFKDPKTVKVDLGREVR-GAKRFLIATGARPAIPPIP----GLKEAG 152
Query: 227 Y 227
Y
Sbjct: 153 Y 153
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 27.8 bits (63), Expect = 7.0
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 12/58 (20%)
Query: 133 YDSLLGTFKADV-----KIVDNETISVDGK-------LIKVVSNRDPLQLPWAELGID 178
Y + L D+ + VD T+ V+G+ LI +P AE GI
Sbjct: 99 YRNGLENNGVDLIEGFARFVDAHTVEVNGERYTADHILIATGGRPSIPDIPGAEYGIT 156
>gnl|CDD|179786 PRK04207, PRK04207, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 341
Score = 27.5 bits (62), Expect = 7.2
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 86 KLKVAINGFGRIGR 99
+KV +NG+G IG+
Sbjct: 1 MIKVGVNGYGTIGK 14
>gnl|CDD|201778 pfam01408, GFO_IDH_MocA, Oxidoreductase family, NAD-binding
Rossmann fold. This family of enzymes utilise NADP or
NAD. This family is called the GFO/IDH/MOCA family in
swiss-prot.
Length = 120
Score = 26.8 bits (60), Expect = 7.2
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 87 LKVAINGFGRIGRNFLRCWHGRKDSPLDVVVVNDSG 122
L+V I G G+IGR LR + ++V + D
Sbjct: 1 LRVGIVGAGKIGRRHLRALN-ESQDGAELVGILDPD 35
>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog
Ypt1. Rab1/Ypt1 subfamily. Rab1 is found in every
eukaryote and is a key regulatory component for the
transport of vesicles from the ER to the Golgi
apparatus. Studies on mutations of Ypt1, the yeast
homolog of Rab1, showed that this protein is necessary
for the budding of vesicles of the ER as well as for
their transport to, and fusion with, the Golgi
apparatus. GTPase activating proteins (GAPs) interact
with GTP-bound Rab and accelerate the hydrolysis of GTP
to GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation of
the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 166
Score = 26.9 bits (60), Expect = 9.4
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 10/52 (19%)
Query: 115 VVVVNDSGGVKNASHLLKY------DSLLGTFKADVKIVDNETISVDGKLIK 160
++++ DSG V + LL++ +S + T D KI TI +DGK +K
Sbjct: 5 LLLIGDSG-VGKSCLLLRFADDTYTESYISTIGVDFKI---RTIELDGKTVK 52
>gnl|CDD|215298 PLN02542, PLN02542, fructose-1,6-bisphosphatase.
Length = 412
Score = 27.1 bits (60), Expect = 10.0
Identities = 22/84 (26%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 1 MASHSALAPSRIPAITRIPSKTTHSFPTQCSTKRLDVAEFAGLRAN-----AGATYATGA 55
++S ++AP+ ++ S T +SFP +K+ A AG+R A AT + A
Sbjct: 11 LSSSRSVAPASQCQLSSFDSLTLNSFPRSPGSKKHHSA--AGVRCAAAAAAAAATASPAA 68
Query: 56 RDASFFD--AVTAQLTPKVAAGSV 77
S ++ +T L + AG +
Sbjct: 69 TKKSGYEIQTLTTWLLKQEQAGVI 92
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 0.133 0.387
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: 13,481,718
Number of extensions: 1302340
Number of successful extensions: 1323
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1265
Number of HSP's successfully gapped: 52
Length of query: 269
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 174
Effective length of database: 6,723,972
Effective search space: 1169971128
Effective search space used: 1169971128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.0 bits)