RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 023894
(275 letters)
>gnl|CDD|215131 PLN02237, PLN02237, glyceraldehyde-3-phosphate dehydrogenase B.
Length = 442
Score = 395 bits (1016), Expect = e-138
Identities = 197/239 (82%), Positives = 212/239 (88%), Gaps = 10/239 (4%)
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 GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNE DYDHEVANIV S SC
Sbjct: 172 GTGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEDDYDHEVANIV-SNASC 229
>gnl|CDD|215572 PLN03096, PLN03096, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 395
Score = 291 bits (746), Expect = 1e-97
Identities = 127/194 (65%), Positives = 148/194 (76%), Gaps = 5/194 (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 TYVVGVNEKDYDHE 230
TYVVGVN DY H
Sbjct: 190 TYVVGVNADDYKHS 203
>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 337
Score = 215 bits (548), Expect = 2e-68
Identities = 97/155 (62%), Positives = 120/155 (77%), Gaps = 2/155 (1%)
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 TAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
TAP KG DI TYVVGVN +YDHE NI+ S SC
Sbjct: 121 TAPGKGEDIGTYVVGVNHHEYDHEDHNII-SNASC 154
>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 = 202 bits (516), Expect = 5e-66
Identities = 80/152 (52%), Positives = 104/152 (68%), Gaps = 5/152 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVRSV 238
+APAK D PT+V GVN +DYD E +IV +
Sbjct: 118 SAPAKD-DDPTFVYGVNHEDYDPE-DDIVSNA 147
>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 = 191 bits (489), Expect = 6e-62
Identities = 78/155 (50%), Positives = 103/155 (66%), Gaps = 6/155 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+AP+K AD PT+V GVN +YD E +I+ + SC
Sbjct: 118 SAPSKDAD-PTFVYGVNHDEYDGE-DHIISNA-SC 149
>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 = 180 bits (459), Expect = 3e-55
Identities = 71/155 (45%), Positives = 97/155 (62%), Gaps = 5/155 (3%)
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 TAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+AP+KG D+ T V GVN +YD + S SC
Sbjct: 120 SAPSKG-DVKTIVYGVNHDEYDPSERIV--SNASC 151
>gnl|CDD|223135 COG0057, GapA, Glyceraldehyde-3-phosphate
dehydrogenase/erythrose-4-phosphate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 335
Score = 175 bits (445), Expect = 5e-53
Identities = 76/157 (48%), Positives = 99/157 (63%), Gaps = 6/157 (3%)
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 IITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+I+AP K D+ T V GVN YD IV + SC
Sbjct: 119 LISAPGKD-DVATVVYGVNHNYYDAG-HTIVSNA-SC 152
>gnl|CDD|236079 PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 343
Score = 172 bits (437), Expect = 8e-52
Identities = 77/156 (49%), Positives = 101/156 (64%), Gaps = 5/156 (3%)
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 ITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+TAP K D+ T VVGVNE D E I+ S SC
Sbjct: 119 LTAPGKNEDV-TIVVGVNEDQLDIEKHTII-SNASC 152
>gnl|CDD|177912 PLN02272, PLN02272, glyceraldehyde-3-phosphate dehydrogenase.
Length = 421
Score = 150 bits (380), Expect = 1e-42
Identities = 85/238 (35%), Positives = 123/238 (51%), Gaps = 13/238 (5%)
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 TGVFVDGPGAGKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+GVF A H++ GAKKV+I+AP+ AD P +VVGVNEK Y + NIV S SC
Sbjct: 182 SGVFTTVEKASAHLKGGAKKVVISAPS--ADAPMFVVGVNEKTYKPNM-NIV-SNASC 235
>gnl|CDD|184122 PRK13535, PRK13535, erythrose 4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 121 bits (306), Expect = 1e-32
Identities = 59/143 (41%), Positives = 84/143 (58%), Gaps = 6/143 (4%)
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-PTYVVGVNEKD 226
+ + P D+ T V GVN
Sbjct: 120 LFSHPG-SNDLDATVVYGVNHDQ 141
>gnl|CDD|173322 PTZ00023, PTZ00023, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 337
Score = 120 bits (303), Expect = 4e-32
Identities = 64/155 (41%), Positives = 90/155 (58%), Gaps = 7/155 (4%)
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 TAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
+AP K D P YV+GVN YD + S SC
Sbjct: 121 SAPPKD-DTPIYVMGVNHTQYDKSQ--RIVSNASC 152
>gnl|CDD|185323 PRK15425, gapA, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 331
Score = 114 bits (285), Expect = 1e-29
Identities = 63/141 (44%), Positives = 86/141 (60%), Gaps = 4/141 (2%)
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 TAPAKGADIPTYVVGVNEKDY 227
T P+K + P +V G N Y
Sbjct: 120 TGPSKD-NTPMFVKGANFDKY 139
>gnl|CDD|165999 PLN02358, PLN02358, glyceraldehyde-3-phosphate dehydrogenase.
Length = 338
Score = 110 bits (277), Expect = 2e-28
Identities = 62/148 (41%), Positives = 93/148 (62%), Gaps = 6/148 (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 VIITAPAKGADIPTYVVGVNEKDYDHEV 231
V+I+AP+K D P +VVGVNE +Y ++
Sbjct: 123 VVISAPSK--DAPMFVVGVNEHEYKSDL 148
>gnl|CDD|185614 PTZ00434, PTZ00434, cytosolic glyceraldehyde 3-phosphate
dehydrogenase; Provisional.
Length = 361
Score = 109 bits (274), Expect = 5e-28
Identities = 70/181 (38%), Positives = 104/181 (57%), Gaps = 13/181 (7%)
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 GKHIQAGAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSCMLIKMATLFHFI 253
H++ GAKKV+I+APA G T V+GVN+ +Y ++V S SC +A + H +
Sbjct: 122 EGHLKGGAKKVVISAPASGG-AKTIVMGVNQHEYSPTEHHVV-SNASCTTNCLAPIVHVL 179
Query: 254 S 254
+
Sbjct: 180 T 180
>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 = 109 bits (273), Expect = 6e-28
Identities = 56/140 (40%), Positives = 79/140 (56%), Gaps = 2/140 (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 TAPAKGADIPTYVVGVNEKD 226
+ P T V GVN+
Sbjct: 120 SHPGASDLDATIVYGVNQDQ 139
>gnl|CDD|236219 PRK08289, PRK08289, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 477
Score = 97.7 bits (244), Expect = 4e-23
Identities = 58/173 (33%), Positives = 82/173 (47%), Gaps = 33/173 (19%)
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-GAKKVIITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
G +H+++ G KV++TAP KG DI V GVN D E IV S SC
Sbjct: 240 EEGLSQHLKSKGVAKVLLTAPGKG-DIKNIVHGVNHSDITDED-KIV-SAASC 289
>gnl|CDD|169599 PRK08955, PRK08955, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 334
Score = 95.2 bits (237), Expect = 9e-23
Identities = 54/157 (34%), Positives = 84/157 (53%), Gaps = 7/157 (4%)
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 IITAPAKGADIPTYVVGVNEKDYDHEVANIVRSVYSC 241
++TAP K + V+GVN+ +D + IV + SC
Sbjct: 117 VVTAPVKEEGVLNIVMGVNDHLFDPAIHPIVTAA-SC 152
>gnl|CDD|173546 PTZ00353, PTZ00353, glycosomal glyceraldehyde-3-phosphate
dehydrogenase; Provisional.
Length = 342
Score = 58.3 bits (141), Expect = 8e-10
Identities = 40/140 (28%), Positives = 72/140 (51%), Gaps = 6/140 (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 TAPAKGADIPTYVVGVNEKD 226
+ AD PT + G N++
Sbjct: 123 A--GQSADAPTVMAGSNDER 140
>gnl|CDD|223536 COG0460, ThrA, Homoserine dehydrogenase [Amino acid transport and
metabolism].
Length = 333
Score = 31.8 bits (73), Expect = 0.32
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|218508 pfam05222, AlaDh_PNT_N, Alanine dehydrogenase/PNT, N-terminal
domain. This family now also contains the lysine
2-oxoglutarate reductases.
Length = 135
Score = 30.4 bits (70), Expect = 0.39
Identities = 24/103 (23%), Positives = 37/103 (35%), Gaps = 30/103 (29%)
Query: 174 ELGIDIVIEGTGVFVDGPGAGKHI------QAGAKKVIITAPA---KGADIPTYVVGVNE 224
+LG ++++E G G G AGA+ I+ A AD+ ++ V E
Sbjct: 25 KLGHEVLVE------SGAGLGAGFSDEAYEAAGAE--IVDTAAEVWAQADL---ILKVKE 73
Query: 225 KDYDHEVANIVRSVYSCMLIKMATLFHFISLLTNLASAAMLLA 267
E+A +L TL F+ N L A
Sbjct: 74 PS-PEELA---------LLRPGQTLITFLHPAANPELLEALAA 106
>gnl|CDD|236551 PRK09533, PRK09533, bifunctional transaldolase/phosoglucose
isomerase; Validated.
Length = 948
Score = 30.7 bits (70), Expect = 1.1
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 = 28.7 bits (64), Expect = 3.2
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|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 = 5.8
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|179786 PRK04207, PRK04207, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 341
Score = 27.9 bits (63), Expect = 6.6
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 86 KLKVAINGFGRIGR 99
+KV +NG+G IG+
Sbjct: 1 MIKVGVNGYGTIGK 14
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 27.8 bits (63), Expect = 6.8
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|215298 PLN02542, PLN02542, fructose-1,6-bisphosphatase.
Length = 412
Score = 27.5 bits (61), Expect = 8.1
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
>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 = 26.4 bits (59), Expect = 8.3
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 = 8.8
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|131269 TIGR02214, spoVD_pbp, stage V sporulation protein D. This model
describes the spoVD subfamily of homologs of the cell
division protein FtsI, a penicillin binding protein.
This subfamily is restricted to Bacillus subtilis and
related Gram-positive species with known or suspected
endospore formation capability. In these species, the
functional equivalent of FtsI is desginated PBP-2B, a
paralog of spoVD [Cell envelope, Biosynthesis and
degradation of murein sacculus and peptidoglycan,
Cellular processes, Sporulation and germination].
Length = 636
Score = 27.5 bits (61), Expect = 9.6
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 7/70 (10%)
Query: 142 ADVKIVDNETISV-DGKLIKVVSNRDPLQLPWAELGIDIVIEGTGVFVDG--PGAGKHIQ 198
E ++V + + +KV L LG+D+ EG G V P G+ ++
Sbjct: 570 PAAATNQVEAVAVPNLRGMKVDDAEKTLL----HLGLDVATEGFGTRVVNQTPIPGEKVK 625
Query: 199 AGAKKVIITA 208
G K V+
Sbjct: 626 EGTKVVLYLG 635
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
0.319 0.134 0.393
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: 13,847,060
Number of extensions: 1343363
Number of successful extensions: 1421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1375
Number of HSP's successfully gapped: 50
Length of query: 275
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 179
Effective length of database: 6,679,618
Effective search space: 1195651622
Effective search space used: 1195651622
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.0 bits)