RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020217
(329 letters)
>gnl|CDD|215131 PLN02237, PLN02237, glyceraldehyde-3-phosphate dehydrogenase B.
Length = 442
Score = 482 bits (1241), Expect = e-171
Identities = 230/273 (84%), Positives = 246/273 (90%), Gaps = 9/273 (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 NCLAPFVKVMDEELGIVKGAMTTTHSYTGDQAL 275
NCLAPFVKV+DEE GIVKG MTTTHSYTGDQ L
Sbjct: 232 NCLAPFVKVLDEEFGIVKGTMTTTHSYTGDQRL 264
>gnl|CDD|215572 PLN03096, PLN03096, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 395
Score = 372 bits (957), Expect = e-128
Identities = 161/239 (67%), Positives = 187/239 (78%), Gaps = 6/239 (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 TYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTTHSYTGDQAL 275
TYVVGVN DY H I+SNASCTTNCLAPFVKV+D++ GI+KG MTTTHSYTGDQ L
Sbjct: 190 TYVVGVNADDYKHS-DPIISNASCTTNCLAPFVKVLDQKFGIIKGTMTTTHSYTGDQRL 247
>gnl|CDD|180962 PRK07403, PRK07403, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 337
Score = 291 bits (745), Expect = 2e-97
Identities = 123/189 (65%), Positives = 150/189 (79%), Gaps = 1/189 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
TAP KG DI TYVVGVN +YDHE NI+SNASCTTNCLAP KV+ + GI+KG MTTT
Sbjct: 121 TAPGKGEDIGTYVVGVNHHEYDHEDHNIISNASCTTNCLAPIAKVLHDNFGIIKGTMTTT 180
Query: 267 HSYTGDQAL 275
HSYTGDQ +
Sbjct: 181 HSYTGDQRI 189
>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 = 258 bits (662), Expect = 7e-85
Identities = 100/189 (52%), Positives = 126/189 (66%), Gaps = 4/189 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
+AP+KG D+ T V GVN +YD IVSNASCTTNCLAP KV+DE GIV G MTT
Sbjct: 120 SAPSKG-DVKTIVYGVNHDEYDPSER-IVSNASCTTNCLAPLAKVLDEAFGIVSGLMTTV 177
Query: 267 HSYTGDQAL 275
HSYT DQ L
Sbjct: 178 HSYTNDQNL 186
>gnl|CDD|223135 COG0057, GapA, Glyceraldehyde-3-phosphate
dehydrogenase/erythrose-4-phosphate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 335
Score = 247 bits (634), Expect = 1e-80
Identities = 100/189 (52%), Positives = 126/189 (66%), Gaps = 5/189 (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 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMT 264
+I+AP K D+ T V GVN YD IVSNASCTTNCLAP KV+++ GI KG MT
Sbjct: 119 LISAPGKD-DVATVVYGVNHNYYDAG-HTIVSNASCTTNCLAPVAKVLNDAFGIEKGLMT 176
Query: 265 TTHSYTGDQ 273
T H+YT DQ
Sbjct: 177 TVHAYTNDQ 185
>gnl|CDD|236079 PRK07729, PRK07729, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 343
Score = 244 bits (625), Expect = 4e-79
Identities = 102/188 (54%), Positives = 129/188 (68%), Gaps = 4/188 (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 ITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTT 265
+TAP K D+ T VVGVNE D E I+SNASCTTNCLAP VKV+DE+ GI G MTT
Sbjct: 119 LTAPGKNEDV-TIVVGVNEDQLDIEKHTIISNASCTTNCLAPVVKVLDEQFGIENGLMTT 177
Query: 266 THSYTGDQ 273
H+YT DQ
Sbjct: 178 VHAYTNDQ 185
>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 = 216 bits (552), Expect = 9e-71
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|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 = 205 bits (523), Expect = 2e-66
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 = 210 bits (537), Expect = 4e-65
Identities = 107/270 (39%), Positives = 149/270 (55%), Gaps = 12/270 (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 CLAPFVKVMDEELGIVKGAMTTTHSYTGDQ 273
CLAP KV+ EE GI++G MTT H+ T Q
Sbjct: 239 CLAPLAKVVHEEFGILEGLMTTVHATTATQ 268
>gnl|CDD|173322 PTZ00023, PTZ00023, glyceraldehyde-3-phosphate dehydrogenase;
Provisional.
Length = 337
Score = 178 bits (454), Expect = 1e-53
Identities = 87/187 (46%), Positives = 119/187 (63%), Gaps = 6/187 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
+AP K D P YV+GVN YD IVSNASCTTNCLAP KV++++ GIV+G MTT
Sbjct: 121 SAPPKD-DTPIYVMGVNHTQYDKSQR-IVSNASCTTNCLAPLAKVVNDKFGIVEGLMTTV 178
Query: 267 HSYTGDQ 273
H+ T +Q
Sbjct: 179 HASTANQ 185
>gnl|CDD|184122 PRK13535, PRK13535, erythrose 4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 176 bits (447), Expect = 1e-52
Identities = 83/190 (43%), Positives = 114/190 (60%), Gaps = 7/190 (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-PTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAM 263
+ + P D+ T V GVN E IVSNASCTTNC+ P +K++D+ GI G +
Sbjct: 120 LFSHPG-SNDLDATVVYGVNHDQLRAE-HRIVSNASCTTNCIIPVIKLLDDAFGIESGTV 177
Query: 264 TTTHSYTGDQ 273
TT HS DQ
Sbjct: 178 TTIHSAMNDQ 187
>gnl|CDD|165999 PLN02358, PLN02358, glyceraldehyde-3-phosphate dehydrogenase.
Length = 338
Score = 165 bits (419), Expect = 1e-48
Identities = 89/190 (46%), Positives = 125/190 (65%), Gaps = 7/190 (3%)
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 VIITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAM 263
V+I+AP+K D P +VVGVNE +Y ++ +IVSNASCTTNCLAP KV+++ GIV+G M
Sbjct: 123 VVISAPSK--DAPMFVVGVNEHEYKSDL-DIVSNASCTTNCLAPLAKVINDRFGIVEGLM 179
Query: 264 TTTHSYTGDQ 273
TT HS T Q
Sbjct: 180 TTVHSITATQ 189
>gnl|CDD|185323 PRK15425, gapA, glyceraldehyde-3-phosphate dehydrogenase A;
Provisional.
Length = 331
Score = 163 bits (414), Expect = 7e-48
Identities = 88/187 (47%), Positives = 119/187 (63%), Gaps = 6/187 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
T P+K + P +V G N Y + +IVSNASCTTNCLAP KV+++ GI++G MTT
Sbjct: 120 TGPSKD-NTPMFVKGANFDKYAGQ--DIVSNASCTTNCLAPLAKVINDNFGIIEGLMTTV 176
Query: 267 HSYTGDQ 273
H+ T Q
Sbjct: 177 HATTATQ 183
>gnl|CDD|185614 PTZ00434, PTZ00434, cytosolic glyceraldehyde 3-phosphate
dehydrogenase; Provisional.
Length = 361
Score = 159 bits (402), Expect = 7e-46
Identities = 91/201 (45%), Positives = 123/201 (61%), Gaps = 13/201 (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-LGIVKGAMTTTHSYTGDQ 273
+E GI G MTT HSYT Q
Sbjct: 181 KEGFGIETGLMTTIHSYTATQ 201
>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 = 156 bits (397), Expect = 2e-45
Identities = 80/187 (42%), Positives = 109/187 (58%), Gaps = 3/187 (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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
+ P T V GVN+ E IVSNASCTTNC+ P +K++D+ GI G +TT
Sbjct: 120 SHPGASDLDATIVYGVNQDQLRAE-HRIVSNASCTTNCIVPVIKLLDDAYGIESGTITTI 178
Query: 267 HSYTGDQ 273
HS DQ
Sbjct: 179 HSAMNDQ 185
>gnl|CDD|236219 PRK08289, PRK08289, glyceraldehyde-3-phosphate dehydrogenase;
Reviewed.
Length = 477
Score = 155 bits (395), Expect = 1e-43
Identities = 76/207 (36%), Positives = 107/207 (51%), Gaps = 32/207 (15%)
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 VKVMDEELGIVKGAMTTTHSYTGDQAL 275
+K ++++ GIV G + T HSYT DQ L
Sbjct: 298 LKAVNDKYGIVNGHVETVHSYTNDQNL 324
>gnl|CDD|169599 PRK08955, PRK08955, glyceraldehyde-3-phosphate dehydrogenase;
Validated.
Length = 334
Score = 152 bits (385), Expect = 2e-43
Identities = 76/189 (40%), Positives = 109/189 (57%), Gaps = 6/189 (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 IITAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMT 264
++TAP K + V+GVN+ +D + IV+ ASCTTNCLAP VKV+ E+LGI G+MT
Sbjct: 117 VVTAPVKEEGVLNIVMGVNDHLFDPAIHPIVTAASCTTNCLAPVVKVIHEKLGIKHGSMT 176
Query: 265 TTHSYTGDQ 273
T H T Q
Sbjct: 177 TIHDLTNTQ 185
>gnl|CDD|173546 PTZ00353, PTZ00353, glycosomal glyceraldehyde-3-phosphate
dehydrogenase; Provisional.
Length = 342
Score = 65.3 bits (159), Expect = 5e-12
Identities = 47/181 (25%), Positives = 87/181 (48%), Gaps = 7/181 (3%)
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 TAPAKGADIPTYVVGVNEKDYDHEVANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTT 266
+ AD PT + G N++ + + LAP ++ + E G+ + + T
Sbjct: 123 A--GQSADAPTVMAGSNDERLS-ASLPVCCAGAPIAVALAPVIRALHEVYGVEECSYTAI 179
Query: 267 H 267
H
Sbjct: 180 H 180
>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 = 54.5 bits (132), Expect = 3e-09
Identities = 18/31 (58%), Positives = 22/31 (70%)
Query: 245 LAPFVKVMDEELGIVKGAMTTTHSYTGDQAL 275
LAP KV+++ GI KG MTT H+YT DQ L
Sbjct: 1 LAPLAKVLNDNFGIEKGLMTTVHAYTADQKL 31
>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 = 38.3 bits (89), Expect = 0.004
Identities = 27/100 (27%), Positives = 48/100 (48%), Gaps = 6/100 (6%)
Query: 176 GIDIVIEGTGVFVDGPGAGKHIQAGAKKVII---TAPAKGADIPTYVVGVNEKD-YDHEV 231
GIDI + G V A K +AG ++I +A D+P V VN +D +
Sbjct: 61 GIDIALFSAGGSVSKEFAPKAAKAGV--IVIDNTSAFRMDPDVPLVVPEVNFEDLKEFNP 118
Query: 232 ANIVSNASCTTNCLAPFVKVMDEELGIVKGAMTTTHSYTG 271
I++N +C+T + +K + +E I + ++T + +G
Sbjct: 119 KGIIANPNCSTIQMVVVLKPLHDEAKIKRVVVSTYQAVSG 158
>gnl|CDD|223536 COG0460, ThrA, Homoserine dehydrogenase [Amino acid transport and
metabolism].
Length = 333
Score = 34.1 bits (79), Expect = 0.078
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|236551 PRK09533, PRK09533, bifunctional transaldolase/phosoglucose
isomerase; Validated.
Length = 948
Score = 31.9 bits (73), Expect = 0.62
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|223214 COG0136, Asd, Aspartate-semialdehyde dehydrogenase [Amino acid
transport and metabolism].
Length = 334
Score = 30.3 bits (69), Expect = 1.4
Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 214 DIPTYVVGVNEKDYDHEVAN--IVSNASCTTNCLAPFVKVMDEELGIVKGAMTT 265
D+P V VN + I++N +C+T L +K + + GI + ++T
Sbjct: 105 DVPLVVPEVNPEHLIDYQKRGFIIANPNCSTIQLVLALKPLHDAFGIKRVVVST 158
>gnl|CDD|237845 PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase;
Provisional.
Length = 334
Score = 30.1 bits (69), Expect = 1.6
Identities = 32/116 (27%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 151 TISVDGKLIKV--VSNRDPLQLPWAELGIDIVIEGTGVFVDGPGAGKHIQAGAKKVII-- 206
+S GK +KV ++ D G+DI + G V A K AGA V+I
Sbjct: 43 ELSFKGKELKVEDLTTFDFS-------GVDIALFSAGGSVSKKYAPKAAAAGA--VVIDN 93
Query: 207 -TAPAKGADIPTYVVGVNEKDYD-HEVANIVSNASCTTNCLAPFVKVMDEELGIVK 260
+A D+P V VN + H I++N +C+T + +K + + GI +
Sbjct: 94 SSAFRMDPDVPLVVPEVNPEALAEHRKKGIIANPNCSTIQMVVALKPLHDAAGIKR 149
>gnl|CDD|236903 PRK11380, PRK11380, hypothetical protein; Provisional.
Length = 353
Score = 29.5 bits (66), Expect = 2.4
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 = 28.9 bits (65), Expect = 3.5
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 = 28.3 bits (64), Expect = 6.0
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 86 KLKVAINGFGRIGR 99
+KV +NG+G IG+
Sbjct: 1 MIKVGVNGYGTIGK 14
>gnl|CDD|130687 TIGR01626, ytfJ_HI0045, conserved hypothetical protein YtfJ-family,
TIGR01626. This model represents sequences from gamma
proteobacteria that are related to the E. coli protein,
YtfJ.
Length = 184
Score = 27.6 bits (61), Expect = 6.4
Identities = 33/102 (32%), Positives = 47/102 (46%), Gaps = 12/102 (11%)
Query: 38 AEFAG----LRANAGATYATGARDASFFDAVTAQLTPKVAAGSVPVKKETVAKLKVAING 93
AE AG + AG T + +AS DA+ A P V + T+ AI G
Sbjct: 55 AELAGKVRVVHHIAGRT-SAKEXNASLIDAIKAAKFPPVK-----YQTTTIINADDAIVG 108
Query: 94 FGRIGRNFLRCWHGRKDSPLDVVVVNDSGGVKNASHLLKYDS 135
G ++ + G+K++P VV++D G VKNA L DS
Sbjct: 109 TGMFVKSSAK--KGKKENPWSQVVLDDKGAVKNAWQLNSEDS 148
>gnl|CDD|235701 PRK06116, PRK06116, glutathione reductase; Validated.
Length = 450
Score = 28.2 bits (64), Expect = 6.7
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|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 = 27.3 bits (61), Expect = 7.1
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|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 = 7.5
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|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 = 28.2 bits (63), Expect = 7.6
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
>gnl|CDD|133445 cd01076, NAD_bind_1_Glu_DH, NAD(P) binding domain of glutamate
dehydrogenase, subgroup 1. Amino acid dehydrogenase
(DH) is a widely distributed family of enzymes that
catalyzes the oxidative deamination of an amino acid to
its keto acid and ammonia with concomitant reduction of
NADP+. Glutamate DH is a multidomain enzyme that
catalyzes the reaction from glutamate to 2-oxyoglutarate
and ammonia in the presence of NAD or NADP. It is
present in all organisms. Enzymes involved in ammonia
assimilation are typically NADP+-dependent, while those
involved in glutamate catabolism are generally
NAD+-dependent. Amino acid DH-like NAD(P)-binding
domains are members of the Rossmann fold superfamily and
include glutamate, leucine, and phenylalanine DHs,
methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha -beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 227
Score = 27.5 bits (62), Expect = 7.7
Identities = 25/82 (30%), Positives = 39/82 (47%), Gaps = 19/82 (23%)
Query: 83 TVAKLKVAINGFGRIGRNFLRCWH--GRKDSPLDVVVVNDS-GGVKNA---------SHL 130
+A +VAI GFG +G + R H G K VV V+DS G + N ++
Sbjct: 28 GLAGARVAIQGFGNVGSHAARFLHEAGAK-----VVAVSDSDGTIYNPDGLDVPALLAYK 82
Query: 131 LKYDSLLGTFKADVKIVDNETI 152
++ S+LG A + + NE +
Sbjct: 83 KEHGSVLGFPGA--ERITNEEL 102
>gnl|CDD|180387 PRK06078, PRK06078, pyrimidine-nucleoside phosphorylase; Reviewed.
Length = 434
Score = 27.7 bits (62), Expect = 9.7
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 18/74 (24%)
Query: 31 STKRLDVAEFAGLRANAGATYATGARDASFFDAVTAQLTPKVAAGSVPVKKE-------- 82
S +D++ G++ + +T G D T L P VAA VPV K
Sbjct: 65 SGDTIDLSAIEGIKVDKHSTGGVG-------DTTTLVLAPLVAAFGVPVAKMSGRGLGHT 117
Query: 83 --TVAKLKVAINGF 94
T+ KL+ +I GF
Sbjct: 118 GGTIDKLE-SIKGF 130
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.132 0.399
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: 16,103,752
Number of extensions: 1547057
Number of successful extensions: 1478
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1418
Number of HSP's successfully gapped: 46
Length of query: 329
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 232
Effective length of database: 6,635,264
Effective search space: 1539381248
Effective search space used: 1539381248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.4 bits)