RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7383
(501 letters)
>gnl|CDD|240624 cd05299, CtBP_dh, C-terminal binding protein (CtBP),
D-isomer-specific 2-hydroxyacid dehydrogenases related
repressor. The transcriptional corepressor CtBP is a
dehydrogenase with sequence and structural similarity to
the d2-hydroxyacid dehydrogenase family. CtBP was
initially identified as a protein that bound the PXDLS
sequence at the adenovirus E1A C terminus, causing the
loss of CR-1-mediated transactivation. CtBP binds NAD(H)
within a deep cleft, undergoes a conformational change
upon NAD binding, and has NAD-dependent dehydrogenase
activity.
Length = 312
Score = 429 bits (1105), Expect = e-149
Identities = 160/323 (49%), Positives = 193/323 (59%), Gaps = 15/323 (4%)
Query: 29 PLVALLDGR--DCSIEMPILKDVATVAFCDAQS--TSEIHEKVLNEAVGALMWHTIILTK 84
P V + D D IE +L++ A V DAQS E+ E +A L+ + + T
Sbjct: 1 PKVVITDYDFPDLDIEREVLEE-AGVELVDAQSRTEDELIEAA-ADADALLVQYAPV-TA 57
Query: 85 EDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRT 144
E +E L++IVR G GVDN+DV AA E GI VCNVP Y EEVAD L LIL L R+
Sbjct: 58 EVIEALPRLKVIVRYGVGVDNVDVAAATERGIPVCNVPDYCTEEVADHALALILALARKL 117
Query: 145 YWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFY 204
+L VR G R+RG TLG+VG GRIG AVA RAKAFGF VI Y
Sbjct: 118 PFLDRAVRAGGWDWT------VGGPIRRLRGLTLGLVGFGRIGRAVAKRAKAFGFRVIAY 171
Query: 205 DPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVN 264
DPY+PDG+ +LG RV +L +LL +SD VSLHC L HLI+ + M+PGAFLVN
Sbjct: 172 DPYVPDGVA-ALGGVRVVSLDELLARSDVVSLHCPLTPETRHLIDAEALALMKPGAFLVN 230
Query: 265 TARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYSEAS 324
TARGGLVD+ +LA ALK GRI AALDV E EP L APN++ TPHAA+YSE S
Sbjct: 231 TARGGLVDEAALARALKSGRIAGAALDVLEEEPPP-ADSPLLSAPNVILTPHAAWYSEES 289
Query: 325 CTELREMAASEIRRAIVGRIPDC 347
ELR AA E+ R + G P
Sbjct: 290 LAELRRKAAEEVVRVLRGEPPRN 312
>gnl|CDD|240622 cd05198, formate_dh_like, Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxy acid
dehydrogenase family. Formate dehydrogenase, D-specific
2-hydroxy acid dehydrogenase, Phosphoglycerate
Dehydrogenase, Lactate dehydrogenase, Thermostable
Phosphite Dehydrogenase, and Hydroxy(phenyl)pyruvate
reductase, among others, share a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. 2-hydroxyacid
dehydrogenases are enzymes that catalyze the conversion
of a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
The NAD+ binding domain is inserted within the linear
sequence of the mostly N-terminal catalytic domain,
which has a similar domain structure to the internal NAD
binding domain. Structurally, these domains are
connected by extended alpha helices and create a cleft
in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. Formate dehydrogenase
(FDH) catalyzes the NAD+-dependent oxidation of formate
ion to carbon dioxide with the concomitant reduction of
NAD+ to NADH. FDHs of this family contain no metal ions
or prosthetic groups. Catalysis occurs though direct
transfer of hydride ion to NAD+ without the stages of
acid-base catalysis typically found in related
dehydrogenases. FDHs are found in all methylotrophic
microorganisms in energy production and in the stress
responses of plants. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase,
among others. While many members of this family are
dimeric, alanine DH is hexameric and phosphoglycerate DH
is tetrameric.
Length = 302
Score = 298 bits (766), Expect = 2e-98
Identities = 126/309 (40%), Positives = 163/309 (52%), Gaps = 10/309 (3%)
Query: 31 VALLDGRDCSIEMPILKD-VATVAFCDAQSTSEIHEKVLNEAVGALMWHTIILTKEDLEK 89
V +L+ + L+ V D E+ E +L +A ++ T +T E L K
Sbjct: 2 VLVLEPLFPPEALEALEATGFEVIVADDLLADEL-EALLADADALIVSSTTPVTAEVLAK 60
Query: 90 FKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLAN 149
L+ I G+GVDNID+ AA + GI V NVPG E VA+ L L+L L RR
Sbjct: 61 APKLKFIQVAGAGVDNIDLDAAKKRGITVTNVPGANAEAVAEHALGLLLALLRRLPRADA 120
Query: 150 MVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLP 209
VR G A + G T+GIVGLGRIG VA R +AFG V++YD
Sbjct: 121 AVRRGWG------WLWAGFPGYELEGKTVGIVGLGRIGQRVAKRLQAFGMKVLYYDRTRK 174
Query: 210 DGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGG 269
E+ LG V +L +LL QSD V LH L HLINE + M+PGA LVNTARGG
Sbjct: 175 PEPEEDLGFRVV-SLDELLAQSDVVVLHLPLTPETRHLINEEELALMKPGAVLVNTARGG 233
Query: 270 LVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYSEASCTELR 329
LVD+D+L ALK G+I AALDV E EP L + PN++ TPH A Y+E + +
Sbjct: 234 LVDEDALLRALKSGKIAGAALDVFEPEP-LPADHPLLELPNVILTPHIAGYTEEARERMA 292
Query: 330 EMAASEIRR 338
E+A + R
Sbjct: 293 EIAVENLER 301
>gnl|CDD|240649 cd12172, PGDH_like_2, Putative D-3-Phosphoglycerate Dehydrogenases,
NAD-binding and catalytic domains. Phosphoglycerate
dehydrogenases (PGDHs) catalyze the initial step in the
biosynthesis of L-serine from D-3-phosphoglycerate.
PGDHs come in 3 distinct structural forms, with this
first group being related to 2-hydroxy acid
dehydrogenases, sharing structural similarity to formate
and glycerate dehydrogenases of the D-specific
2-hydroxyacid dehydrogenase superfamily, which also
include groups such as L-alanine dehydrogenase and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. Many, not all, members of this family are
dimeric.
Length = 306
Score = 273 bits (701), Expect = 1e-88
Identities = 114/283 (40%), Positives = 153/283 (54%), Gaps = 17/283 (6%)
Query: 59 STSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAV 118
+ E+ E L +A G + I T+E L L++I R G G DNID++AA + GI V
Sbjct: 37 TEEELIEL-LKDADGVIAGLDPI-TEEVLAAAPRLKVISRYGVGYDNIDLEAAKKRGIVV 94
Query: 119 CNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGK--KFTGPEQLREAASGCARIRGD 176
N PG VA+ T+ L+L L R+ VR G + G E + G
Sbjct: 95 TNTPGANSNSVAELTIGLMLALARQIPQADREVRAGGWDRPVGTE-----------LYGK 143
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSL 236
TLGI+GLGRIG AVA R FG V+ YDPY + K G+ V +L++LL +SD +SL
Sbjct: 144 TLGIIGLGRIGKAVARRLSGFGMKVLAYDPYPDEEFAKEHGVEFV-SLEELLKESDFISL 202
Query: 237 HCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESE 296
H L HLIN + M+PGA L+NTARGGLVD+++L ALK GRI AALDV E E
Sbjct: 203 HLPLTPETRHLINAAELALMKPGAILINTARGGLVDEEALYEALKSGRIAGAALDVFEEE 262
Query: 297 PYNVFQGNLKDAPNILCTPHAAFYSEASCTELREMAASEIRRA 339
P L + PN++ TPH ++ + + MAA +
Sbjct: 263 PPPA-DSPLLELPNVILTPHIGASTKEAVLRMGTMAAQNVIDV 304
>gnl|CDD|215893 pfam00389, 2-Hacid_dh, D-isomer specific 2-hydroxyacid
dehydrogenase, catalytic domain. This family represents
the largest portion of the catalytic domain of
2-hydroxyacid dehydrogenases as the NAD binding domain
is inserted within the structural domain.
Length = 312
Score = 261 bits (669), Expect = 8e-84
Identities = 110/327 (33%), Positives = 147/327 (44%), Gaps = 22/327 (6%)
Query: 33 LLDGRDCSIEMPILKDVATVAFCDAQSTSEIHEKVLNEAVGALMWHTII-LTKEDLEKFK 91
L+ E+ +LK+ V D T E+ E + AL+ + +T E LE
Sbjct: 2 LITDPLRPEELELLKEGGEVEVHDELLTEELLEAA--KDADALIVRSTTPVTAEVLEAAP 59
Query: 92 TLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMV 151
L++I R G GVDNID+ AA E GI V NVPGY E VA+ T+ LIL L RR V
Sbjct: 60 GLKVIARRGVGVDNIDLDAATERGILVTNVPGYSTESVAELTVGLILALARRIPEADASV 119
Query: 152 REGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDG 211
R G G E + G TLG++G G IG A AKA G V+ YDPY
Sbjct: 120 RAGDWKKGGPIGLE-------LYGKTLGVIGGGGIGGIGAAIAKALGMGVVAYDPYPNPE 172
Query: 212 IEKSLGLTRVYTLQDLLFQSDC-----VSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTA 266
+ G L DLL ++L H+I ++ + N
Sbjct: 173 RAEEGG--VEVLLLDLLLLDLKESDDLINLAPPTTMKTGHIIINEARGMLKDAVAINNAR 230
Query: 267 RGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYSEASCT 326
GG++++ AL + I AAALDV E EP V L D PN++ TPH A +E +
Sbjct: 231 GGGVIEEA-ALDALLEEGIAAAALDVVEEEPPPVNSP-LLDLPNVILTPHIAGATEEAQE 288
Query: 327 ELREMAASEIRRAIVGRIPDCLRNCVN 353
+ E AA + + G P N VN
Sbjct: 289 NMAEEAAENLLAFLKGGTP---PNAVN 312
>gnl|CDD|223980 COG1052, LdhA, Lactate dehydrogenase and related dehydrogenases
[Energy production and conversion / Coenzyme metabolism
/ General function prediction only].
Length = 324
Score = 261 bits (668), Expect = 1e-83
Identities = 125/313 (39%), Positives = 165/313 (52%), Gaps = 10/313 (3%)
Query: 46 LKDVATVAFCDAQSTSEIHE-KVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVD 104
LK+ V + T + + L +A + + + E LEK L++I +G D
Sbjct: 19 LKEKFEVERYEDDLTPDTELAERLKDADAVITFVNDRIDAEVLEKLPGLKLIATRSAGYD 78
Query: 105 NIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLR 164
N+D++AA E GI V NVPGY E VA+ + LIL L RR + VREG
Sbjct: 79 NVDLEAAKERGITVTNVPGYSTEAVAEHAVALILALARRIHEGDRRVREGNWSLSGGPDP 138
Query: 165 EAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTL 224
+RG TLGI+GLGRIG AVA R K FG V++YD EK LG V L
Sbjct: 139 LLGF---DLRGKTLGIIGLGRIGQAVARRLKGFGMKVLYYDRSPNPEAEKELGARYV-DL 194
Query: 225 QDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGR 284
+LL +SD +SLHC L HLIN + +M+PGA LVNTARGGLVD+ +L ALK G+
Sbjct: 195 DELLAESDIISLHCPLTPETRHLINAEELAKMKPGAILVNTARGGLVDEQALIDALKSGK 254
Query: 285 IRAAALDVHESEPYNVFQG--NLKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVG 342
I A LDV E+EP L + PN++ TPH A +E + + E+A + G
Sbjct: 255 IAGAGLDVFENEPALFDHPLLRLDNFPNVVLTPHIASATEEARKAMAELALENLEAFFDG 314
Query: 343 RIPDCLRNCVNKE 355
+P N VN E
Sbjct: 315 GVPP---NEVNPE 324
>gnl|CDD|240650 cd12173, PGDH_4, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 256 bits (658), Expect = 3e-82
Identities = 114/272 (41%), Positives = 149/272 (54%), Gaps = 27/272 (9%)
Query: 81 ILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNL 140
+T E +E L++I R G GVDNIDV+AA GI V N PG VA+ T+ L+L L
Sbjct: 51 KVTAEVIEAAPRLKVIGRAGVGVDNIDVEAATARGILVVNAPGANTISVAEHTIALMLAL 110
Query: 141 YRRTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKA 196
R +R G KKF G E +RG TLGIVGLGRIG VA RA+A
Sbjct: 111 ARNIPQADASLRAGKWDRKKFMGVE-----------LRGKTLGIVGLGRIGREVARRARA 159
Query: 197 FGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQM 256
FG V+ YDPY+ + G + +L +LL ++D +SLH L LIN + +M
Sbjct: 160 FGMKVLAYDPYISAERAAAGG-VELVSLDELLAEADFISLHTPLTPETRGLINAEELAKM 218
Query: 257 RPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN-LKDAPNILCTP 315
+PGA L+NTARGG+VD+ +LA ALK G+I AALDV E EP + L PN++ TP
Sbjct: 219 KPGAILINTARGGIVDEAALADALKSGKIAGAALDVFEQEP--PPADSPLLGLPNVILTP 276
Query: 316 HAAFYSEASCTELRE----MAASEIRRAIVGR 343
H AS E +E AA ++ + G
Sbjct: 277 HLG----ASTEEAQERVAVDAAEQVLAVLAGE 304
>gnl|CDD|223189 COG0111, SerA, Phosphoglycerate dehydrogenase and related
dehydrogenases [Amino acid transport and metabolism].
Length = 324
Score = 252 bits (645), Expect = 4e-80
Identities = 114/294 (38%), Positives = 155/294 (52%), Gaps = 21/294 (7%)
Query: 70 EAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEV 129
+A+ + +T+E L L+ I R G+GVDNID++AA + GI V N PG V
Sbjct: 47 DALIVSVTP---VTEEVLAAAPNLKAIGRAGAGVDNIDLEAATKRGILVVNAPGGNAISV 103
Query: 130 ADTTLCLILNLYRRTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGR 185
A+ L L+L L RR R G K F G E + G T+GI+GLGR
Sbjct: 104 AELVLALLLALARRIPDADASQRRGEWDRKAFRGTE-----------LAGKTVGIIGLGR 152
Query: 186 IGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNH 245
IG AVA R KAFG VI YDPY P G+ V +L +LL ++D ++LH L
Sbjct: 153 IGRAVAKRLKAFGMKVIGYDPYSPRERAGVDGVVGVDSLDELLAEADILTLHLPLTPETR 212
Query: 246 HLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN- 304
LIN + +M+PGA L+N ARGG+VD+D+L AAL G+I AALDV E EP + +
Sbjct: 213 GLINAEELAKMKPGAILINAARGGVVDEDALLAALDSGKIAGAALDVFEEEP--LPADSP 270
Query: 305 LKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVGRIPDCLRNCVNKEYFP 358
L D PN++ TPH ++ + + E+ A I R + G V+ E
Sbjct: 271 LWDLPNVILTPHIGGSTDEAQERVAEIVAENIVRYLAGGPVVNNAPEVDLERGY 324
>gnl|CDD|240652 cd12175, 2-Hacid_dh_11, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 311
Score = 241 bits (618), Expect = 3e-76
Identities = 104/269 (38%), Positives = 144/269 (53%), Gaps = 11/269 (4%)
Query: 79 TIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLIL 138
++ E L LR+I + G G+D +D++AA GI V N+PG E VA+ + L+L
Sbjct: 52 RKVIDAELLAAAPRLRLIQQPGVGLDGVDLEAATARGIPVANIPGGNAESVAEHAVMLML 111
Query: 139 NLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFG 198
L RR +R G+ R + G T+GIVGLG IG AVA R + FG
Sbjct: 112 ALLRRLPEADRELRAGRWG------RPEGRPSRELSGKTVGIVGLGNIGRAVARRLRGFG 165
Query: 199 FNVIFYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMR 257
VI+YD + P+ EK LG+ V L +LL +SD VSLH L HLI + M+
Sbjct: 166 VEVIYYDRFRDPEAEEKDLGVRYV-ELDELLAESDVVSLHVPLTPETRHLIGAEELAAMK 224
Query: 258 PGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN-LKDAPNILCTPH 316
PGA L+NTARGGLVD+++L AAL+ G + A LDV EP + + L N++ TPH
Sbjct: 225 PGAILINTARGGLVDEEALLAALRSGHLAGAGLDVFWQEP--LPPDDPLLRLDNVILTPH 282
Query: 317 AAFYSEASCTELREMAASEIRRAIVGRIP 345
A ++ S + + A I R + G P
Sbjct: 283 IAGVTDESYQRMAAIVAENIARLLRGEPP 311
>gnl|CDD|240626 cd05301, GDH, D-glycerate dehydrogenase/hydroxypyruvate reductase
(GDH). D-glycerate dehydrogenase (GDH, also known as
hydroxypyruvate reductase, HPR) catalyzes the reversible
reaction of (R)-glycerate + NAD+ to hydroxypyruvate +
NADH + H+. In humans, HPR deficiency causes primary
hyperoxaluria type 2, characterized by over-excretion of
L-glycerate and oxalate in the urine, possibly due to an
imbalance in competition with L-lactate dehydrogenase,
another formate dehydrogenase (FDH)-like enzyme. GDH,
like FDH and other members of the D-specific hydroxyacid
dehydrogenase family that also includes L-alanine
dehydrogenase and S-adenosylhomocysteine hydrolase,
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form, despite often low sequence identity. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 309
Score = 240 bits (615), Expect = 1e-75
Identities = 107/278 (38%), Positives = 140/278 (50%), Gaps = 12/278 (4%)
Query: 43 MPILKDVATVAFCD---AQSTSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRI 99
+ +L++ V D E+ E A G L T + E L+ L++I
Sbjct: 14 LALLREGFEVEVWDEDRPLPREELLEAA-KGADGLLCTLTDKIDAELLDAAPPLKVIANY 72
Query: 100 GSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGK-KFT 158
G D+IDV AA GI V N P + AD L+L RR VR G+ K
Sbjct: 73 SVGYDHIDVDAAKARGIPVTNTPDVLTDATADLAFALLLAAARRVVEGDRFVRAGEWKGW 132
Query: 159 GPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGL 218
P L G + G TLGIVG+GRIG AVA RAK FG +++++ E+ LG
Sbjct: 133 SPTLL----LG-TDLHGKTLGIVGMGRIGQAVARRAKGFGMKILYHNRSRKPEAEEELGA 187
Query: 219 TRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAA 278
V +L +LL +SD VSLHC L HLIN + M+P A L+NTARGG+VD+D+L
Sbjct: 188 RYV-SLDELLAESDFVSLHCPLTPETRHLINAERLALMKPTAILINTARGGVVDEDALVE 246
Query: 279 ALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPH 316
ALK G+I A LDV E EP L PN++ PH
Sbjct: 247 ALKSGKIAGAGLDVFEPEPLPADHP-LLTLPNVVLLPH 283
>gnl|CDD|240620 cd01619, LDH_like, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-Hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2 domain structure of formate dehydrogenase.
D-HicDH is a NAD-dependent member of the
hydroxycarboxylate dehydrogenase family, and shares the
Rossmann fold typical of many NAD binding proteins.
D-HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. Similar to the structurally
distinct L-HicDH, D-HicDH exhibits low side-chain R
specificity, accepting a wide range of 2-oxocarboxylic
acid side chains. (R)-2-hydroxyglutarate dehydrogenase
(HGDH) catalyzes the NAD-dependent reduction of
2-oxoglutarate to (R)-2-hydroxyglutarate.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 323
Score = 236 bits (605), Expect = 4e-74
Identities = 110/307 (35%), Positives = 150/307 (48%), Gaps = 22/307 (7%)
Query: 37 RDCSIEMPILKDV-ATVAFCDAQSTSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRI 95
+ IE ILK V + ++ A L T + E L+K L+
Sbjct: 11 DELEIEKEILKAGGVDVEIVTYLLNDDETAELAKGADAILTAFTDKIDAELLDKAPGLKF 70
Query: 96 IVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGK 155
I +G DNID+ A ELGI V NVP Y VA+ T+ LIL L R R+
Sbjct: 71 ISLRATGYDNIDLDYAKELGIGVTNVPEYSPNAVAEHTIALILALLRNRK--YIDERDKN 128
Query: 156 KFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKS 215
+ L++A + T+G+VG G+IG AVA RAK FG VI YDP+ +E
Sbjct: 129 Q-----DLQDAGVIGRELEDQTVGVVGTGKIGRAVAQRAKGFGMKVIAYDPFRNPELEDK 183
Query: 216 LGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDS 275
G+ V +L++L SD +SLH L NHH+INE K M+ G ++NTARG LVD ++
Sbjct: 184 -GVKYV-SLEELFKNSDIISLHVPLTPENHHMINEEAFKLMKKGVIIINTARGSLVDTEA 241
Query: 276 LAAALKQGRIRAAALDVHESEP---YNVFQGN---------LKDAPNILCTPHAAFYSEA 323
L AL G+I A LDV E E +G L PN++ TPH AFY++
Sbjct: 242 LIEALDSGKIFGAGLDVLEDETPDLLKDLEGEIFKDALNALLGRRPNVIITPHTAFYTDD 301
Query: 324 SCTELRE 330
+ + E
Sbjct: 302 ALKNMVE 308
>gnl|CDD|240639 cd12162, 2-Hacid_dh_4, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine yydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 307
Score = 234 bits (600), Expect = 2e-73
Identities = 103/268 (38%), Positives = 145/268 (54%), Gaps = 26/268 (9%)
Query: 80 IILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILN 139
++L E L + L++I + +G +N+D+ AA E GI V NVPGY + VA T L+L
Sbjct: 53 VVLDAEVLAQLPNLKLIGVLATGYNNVDLAAAKERGITVTNVPGYSTDSVAQHTFALLLA 112
Query: 140 LYRRTYWLANMVREGK--------KFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVA 191
L R + ++V+ G+ + P + E + G TLGI+G G IG AVA
Sbjct: 113 LARLVAYHNDVVKAGEWQKSPDFCFWDYP--IIE-------LAGKTLGIIGYGNIGQAVA 163
Query: 192 LRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEF 251
A+AFG V+F + L V +L +LL QSD +SLHC L +LIN
Sbjct: 164 RIARAFGMKVLFAERK----GAPPLREGYV-SLDELLAQSDVISLHCPLTPETRNLINAE 218
Query: 252 TIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN--LKDAP 309
+ +M+PGA L+NTARGGLVD+ +LA AL G+I A LDV EP N LK AP
Sbjct: 219 ELAKMKPGAILINTARGGLVDEQALADALNSGKIAGAGLDVLSQEPPR--ADNPLLKAAP 276
Query: 310 NILCTPHAAFYSEASCTELREMAASEIR 337
N++ TPH A+ S + L ++ I+
Sbjct: 277 NLIITPHIAWASREARQRLMDILVDNIK 304
>gnl|CDD|240628 cd05303, PGDH_2, Phosphoglycerate dehydrogenase (PGDH) NAD-binding
and catalytic domains. Phosphoglycerate dehydrogenase
(PGDH) catalyzes the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDH comes in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 301
Score = 231 bits (592), Expect = 2e-72
Identities = 100/239 (41%), Positives = 142/239 (59%), Gaps = 18/239 (7%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
+TKE ++ K L+II R G G+DNIDV+ A + GI V N PG VA+ + L+L+L
Sbjct: 53 VTKEVIDAAKNLKIIARAGVGLDNIDVEYAKKKGIKVINTPGASSNSVAELVIGLMLSLA 112
Query: 142 RRTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAF 197
R + ++ G KK+ G E +RG TLGI+G GRIG VA A+A
Sbjct: 113 RFIHRANREMKLGKWNKKKYKGIE-----------LRGKTLGIIGFGRIGREVAKIARAL 161
Query: 198 GFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMR 257
G NVI YDPY D LG+ V +L++LL SD +SLH L H+IN+ ++ M+
Sbjct: 162 GMNVIAYDPYPKDEQAVELGVKTV-SLEELLKNSDFISLHVPLTPETKHMINKKELELMK 220
Query: 258 PGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPH 316
GA ++NT+RGG++D+++L ALK G++ AALDV E+EP + L + PN+ TPH
Sbjct: 221 DGAIIINTSRGGVIDEEALLEALKSGKLAGAALDVFENEPPPGSK--LLELPNVSLTPH 277
>gnl|CDD|240655 cd12178, 2-Hacid_dh_13, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 317
Score = 229 bits (586), Expect = 2e-71
Identities = 114/272 (41%), Positives = 146/272 (53%), Gaps = 11/272 (4%)
Query: 83 TKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYR 142
KE ++ K L+II G+G DNIDV A E GI V N P E A+ T LIL L R
Sbjct: 56 DKEIIDAAKNLKIIANYGAGFDNIDVDYAKEKGIPVTNTPAVSTEPTAELTFGLILALAR 115
Query: 143 RTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVI 202
R ++R G F G L + G TLGI+G+GRIG AVA RAKAFG ++
Sbjct: 116 RIAEGDRLMRRGG-FLGWAPLFFLGH---ELAGKTLGIIGMGRIGQAVARRAKAFGMKIL 171
Query: 203 FYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAF 261
+Y+ + L + EK LG T V L +LL +SD VSLH HHLI+ K M+P A+
Sbjct: 172 YYNRHRLSEETEKELGATYV-DLDELLKESDFVSLHAPYTPETHHLIDAAAFKLMKPTAY 230
Query: 262 LVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYS 321
L+N ARG LVD+ +L ALK G I AALDV E EP LK N++ TPH +
Sbjct: 231 LINAARGPLVDEKALVDALKTGEIAGAALDVFEFEPE--VSPELKKLDNVILTPHIGNAT 288
Query: 322 EASCTELREMAASEIRRAIVGRIPDCLRNCVN 353
+ + + AA I + G+ P N VN
Sbjct: 289 VEARDAMAKEAADNIISFLEGKRPK---NIVN 317
>gnl|CDD|237436 PRK13581, PRK13581, D-3-phosphoglycerate dehydrogenase;
Provisional.
Length = 526
Score = 231 bits (592), Expect = 1e-69
Identities = 111/279 (39%), Positives = 148/279 (53%), Gaps = 29/279 (10%)
Query: 83 TKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYR 142
T E LE K L++I R G GVDN+DV AA GI V N P A+ T+ L+L L R
Sbjct: 55 TAEVLEAAKNLKVIGRAGVGVDNVDVPAATRRGIIVVNAPTGNTISAAEHTIALMLALAR 114
Query: 143 RTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFG 198
++ G KKF G E + G TLGI+GLGRIGS VA RAKAFG
Sbjct: 115 NIPQAHASLKAGKWERKKFMGVE-----------LYGKTLGIIGLGRIGSEVAKRAKAFG 163
Query: 199 FNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRP 258
VI YDPY+ LG+ V +L +LL ++D ++LH L LI + +M+P
Sbjct: 164 MKVIAYDPYISPERAAQLGVELV-SLDELLARADFITLHTPLTPETRGLIGAEELAKMKP 222
Query: 259 GAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAA 318
G ++N ARGG++D+ +LA ALK G++ AALDV E EP L + PN++ TPH
Sbjct: 223 GVRIINCARGGIIDEAALAEALKSGKVAGAALDVFEKEP--PTDSPLFELPNVVVTPHLG 280
Query: 319 FYSEASCTELREMA----ASEIRRAIVGRIPDCLRNCVN 353
AS E +E A ++ A+ G + N VN
Sbjct: 281 ----ASTAEAQENVAIQVAEQVIDALRG---GPVPNAVN 312
>gnl|CDD|240645 cd12168, Mand_dh_like, D-Mandelate Dehydrogenase-like
dehydrogenases. D-Mandelate dehydrogenase (D-ManDH),
identified as an enzyme that interconverts
benzoylformate and D-mandelate, is a D-2-hydroxyacid
dehydrogenase family member that catalyzes the
conversion of c3-branched 2-ketoacids. D-ManDH exhibits
broad substrate specificities for 2-ketoacids with large
hydrophobic side chains, particularly those with
C3-branched side chains. 2-hydroxyacid dehydrogenases
catalyze the conversion of a wide variety of D-2-hydroxy
acids to their corresponding keto acids. The general
mechanism is (R)-lactate + acceptor to pyruvate +
reduced acceptor. Glycerate dehydrogenase catalyzes the
reaction (R)-glycerate + NAD+ to hydroxypyruvate + NADH
+ H+. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 321
Score = 219 bits (560), Expect = 2e-67
Identities = 97/254 (38%), Positives = 136/254 (53%), Gaps = 9/254 (3%)
Query: 90 FKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLAN 149
+L+II G+G D IDV A + GI V N PG E ADT L LIL R
Sbjct: 74 PPSLKIIAHAGAGYDQIDVDALTKRGIQVSNTPGAVDEATADTALFLILGALRNFSRAER 133
Query: 150 MVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPY-L 208
R GK + + RG TLGI+GLG IG A+A +A AFG +I+++ L
Sbjct: 134 SARAGKWRGFLD-----LTLAHDPRGKTLGILGLGGIGKAIARKAAAFGMKIIYHNRSRL 188
Query: 209 PDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARG 268
P+ +EK+L T +L +LL QSD VSL+C L HLIN+ +M+ G +VNTARG
Sbjct: 189 PEELEKALA-TYYVSLDELLAQSDVVSLNCPLTAATRHLINKKEFAKMKDGVIIVNTARG 247
Query: 269 GLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYSEASCTEL 328
++D+D+L AL+ G++ +A LDV E+EP V G L PN+ PH + + ++
Sbjct: 248 AVIDEDALVDALESGKVASAGLDVFENEP-EVNPG-LLKMPNVTLLPHMGTLTVETQEKM 305
Query: 329 REMAASEIRRAIVG 342
E+ I +
Sbjct: 306 EELVLENIEAFLET 319
>gnl|CDD|217244 pfam02826, 2-Hacid_dh_C, D-isomer specific 2-hydroxyacid
dehydrogenase, NAD binding domain. This domain is
inserted into the catalytic domain, the large
dehydrogenase and D-lactate dehydrogenase families in
SCOP. N-terminal portion of which is represented by
family pfam00389.
Length = 175
Score = 212 bits (542), Expect = 9e-67
Identities = 90/185 (48%), Positives = 108/185 (58%), Gaps = 10/185 (5%)
Query: 134 LCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALR 193
L L+L L RR VR G+ RE + G T+GI+GLGRIG AVA R
Sbjct: 1 LALLLALARRIPEADRQVRAGRWRPDALLGRE-------LSGKTVGIIGLGRIGRAVARR 53
Query: 194 AKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTI 253
KAFG VI YD Y P ++LG V +L +LL +SD VSLH L HLIN +
Sbjct: 54 LKAFGMKVIAYDRY-PKAEAEALGARYV-SLDELLAESDVVSLHLPLTPETRHLINAERL 111
Query: 254 KQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILC 313
M+PGA L+NTARGGLVD+D+L AALK GRI AALDV E EP L + PN++
Sbjct: 112 ALMKPGAILINTARGGLVDEDALIAALKSGRIAGAALDVFEPEPL-PPDHPLLELPNVIL 170
Query: 314 TPHAA 318
TPH A
Sbjct: 171 TPHIA 175
>gnl|CDD|240663 cd12187, LDH_like_1, D-Lactate and related Dehydrogenase like
proteins, NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-Hydroxyisocaproic acid dehydrogenase(D-HicDH) and
shares the 2 domain structure of formate dehydrogenase.
D-2-hydroxyisocaproate dehydrogenase-like (HicDH)
proteins are NAD-dependent members of the
hydroxycarboxylate dehydrogenase family, and share the
Rossmann fold typical of many NAD binding proteins.
HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 329
Score = 214 bits (547), Expect = 2e-65
Identities = 100/285 (35%), Positives = 140/285 (49%), Gaps = 35/285 (12%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
L E LEK L++I +G D+ID++A E GIAVCNVP YG VA+ L+L L
Sbjct: 53 LDAEVLEKLPRLKLIATRSTGFDHIDLEACRERGIAVCNVPDYGEATVAEHAFALLLALS 112
Query: 142 RRTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAF 197
R+ R G G E + G TLG+VG GRIG VA A+ F
Sbjct: 113 RKLREAIERTRRGDFSQAGLRGFE-----------LAGKTLGVVGTGRIGRRVARIARGF 161
Query: 198 GFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMR 257
G V+ YD + + + LG V +L++LL +SD +SLH HHLIN M+
Sbjct: 162 GMKVLAYDVVPDEELAERLGFRYV-SLEELLQESDIISLHVPYTPQTHHLINRENFALMK 220
Query: 258 PGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP------YNVF--------QG 303
PGA L+NTARG +VD ++L ALK+G++ A LDV E E +
Sbjct: 221 PGAVLINTARGAVVDTEALVRALKEGKLAGAGLDVLEQEEVLREEAELFREDVSPEDLKK 280
Query: 304 NLKD-----APNILCTPHAAFYSEASCTELREMAASEIRRAIVGR 343
L D PN++ TPH A+ ++ + + + I+ G+
Sbjct: 281 LLADHALLRKPNVIITPHVAYNTKEALERILDTTVENIKAFAAGQ 325
>gnl|CDD|240648 cd12171, 2-Hacid_dh_10, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 310
Score = 212 bits (543), Expect = 5e-65
Identities = 106/291 (36%), Positives = 149/291 (51%), Gaps = 31/291 (10%)
Query: 62 EIHEKVLNEAVGA--LMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVC 119
E E++L A L+ H +TK+ +E L++I G +N+DV+AA E GI V
Sbjct: 35 EPEEELLEALKDADILITHFAPVTKKVIEAAPKLKLIGVCRGGPENVDVEAATERGIPVL 94
Query: 120 NVPGYGVEEVADTTLCLILNLYRRT----YWLANMVREGK----KFTGPEQLREAASGCA 171
N PG E VA+ T+ L+L R L + GPE
Sbjct: 95 NTPGRNAEAVAEFTVGLMLAETRNIARAHAALKDGEWRKDYYNYDGYGPE---------- 144
Query: 172 RIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQS 231
+RG T+GIVG G IG VA R KAFG V+ YDPY+ ++ G+ +V +L++LL +S
Sbjct: 145 -LRGKTVGIVGFGAIGRRVAKRLKAFGAEVLVYDPYVDPEKIEADGVKKV-SLEELLKRS 202
Query: 232 DCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALD 291
D VSLH L +I M+P A+ +NTAR GLVD+D+L AL++G+I AALD
Sbjct: 203 DVVSLHARLTPETRGMIGAEEFALMKPTAYFINTARAGLVDEDALIEALEEGKIGGAALD 262
Query: 292 VHESEPYNVFQGN-LKDAPNILCTPHAAFYSEASC-TELR--EMAASEIRR 338
V EP + + L N+ TPH A A+ R E+ A E++R
Sbjct: 263 VFPEEP--LPADHPLLKLDNVTLTPHIA---GATRDVAERSPEIIAEELKR 308
>gnl|CDD|240654 cd12177, 2-Hacid_dh_12, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 321
Score = 212 bits (541), Expect = 1e-64
Identities = 114/333 (34%), Positives = 163/333 (48%), Gaps = 32/333 (9%)
Query: 32 ALLDGRDCSIEMPILKDVATVAFCDAQSTSEIHEKVLNEAVGALMWHTII-------LTK 84
+ G+ + LK + V + I K L E L + II K
Sbjct: 7 SSSFGQYFPEHIQRLKKIGYVDRFEVPPD--ISGKALAEK---LKGYDIIIASVTPNFDK 61
Query: 85 EDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYG-VEEVADTTLCLILNLYRR 143
E E L++I R G G DN+D+KAA E G+ V VPG + VA+ + LIL + R+
Sbjct: 62 EFFEYNDGLKLIARHGIGYDNVDLKAATEHGVIVTRVPGAVERDAVAEHAVALILTVLRK 121
Query: 144 TYWLANMVREGK-----KFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVA-LRAKAF 197
+ V+EGK F G E + G T+GI+G G IGS VA + + F
Sbjct: 122 INQASEAVKEGKWTERANFVGHE-----------LSGKTVGIIGYGNIGSRVAEILKEGF 170
Query: 198 GFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMR 257
V+ YDPY+ + + K G V +L++LL +SD +SLH L E +H+INE +M+
Sbjct: 171 NAKVLAYDPYVSEEVIKKKGAKPV-SLEELLAESDIISLHAPLTEETYHMINEKAFSKMK 229
Query: 258 PGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHA 317
G LVNTARG L+D+++L ALK G+I A LDV E EP L N++ TPH
Sbjct: 230 KGVILVNTARGELIDEEALIEALKSGKIAGAGLDVLEEEPIKADHPLLHY-ENVVITPHI 288
Query: 318 AFYSEASCTELREMAASEIRRAIVGRIPDCLRN 350
Y+ S + E +I + G+ P + N
Sbjct: 289 GAYTYESLYGMGEKVVDDIEDFLAGKEPKGILN 321
>gnl|CDD|240651 cd12174, PGDH_like_3, Putative D-3-Phosphoglycerate Dehydrogenases,
NAD-binding and catalytic domains. Phosphoglycerate
dehydrogenases (PGDHs) catalyze the initial step in the
biosynthesis of L-serine from D-3-phosphoglycerate.
PGDHs come in 3 distinct structural forms, with this
first group being related to 2-hydroxy acid
dehydrogenases, sharing structural similarity to formate
and glycerate dehydrogenases of the D-specific
2-hydroxyacid dehydrogenase superfamily, which also
include groups such as L-alanine dehydrogenase and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. Many, not all, members of this family are
dimeric.
Length = 305
Score = 208 bits (532), Expect = 2e-63
Identities = 101/285 (35%), Positives = 141/285 (49%), Gaps = 38/285 (13%)
Query: 85 EDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRT 144
D++ +L+ I R G+GV+NIDV AA + GI V N PG VA+ + ++L L R
Sbjct: 43 HDMDFAPSLKAIARAGAGVNNIDVDAASKRGIVVFNTPGANANAVAELVIAMMLALSRNI 102
Query: 145 Y----WLANM--------VREGKK-FTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVA 191
W+ N V +GKK F G E +RG TLG++GLG IG VA
Sbjct: 103 IQAIKWVTNGDGDDISKGVEKGKKQFVGTE-----------LRGKTLGVIGLGNIGRLVA 151
Query: 192 LRAKAFGFNVIFYDPYLPDGIEKSLG--LTRVYTLQDLLFQSDCVSLHCTLNEHNHHLIN 249
A A G VI YDPYL L + RV +L++LL +D ++LH L + LIN
Sbjct: 152 NAALALGMKVIGYDPYLSVEAAWKLSVEVQRVTSLEELLATADYITLHVPLTDETRGLIN 211
Query: 250 EFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAP 309
+ +M+PGA L+N ARG +VD+++L AL +G++ D E L P
Sbjct: 212 AELLAKMKPGAILLNFARGEIVDEEALLEALDEGKLGGYVTDFPEPA-------LLGHLP 264
Query: 310 NILCTPH-AAFYSEASCTELREMAASEIRRAIVGRIPDCLRNCVN 353
N++ TPH A EA MAA +I + + N VN
Sbjct: 265 NVIATPHLGASTEEAE-ENCAVMAARQIMDFLETGN---ITNSVN 305
>gnl|CDD|240638 cd12161, GDH_like_1, Putative glycerate dehydrogenase and related
proteins of the D-specific 2-hydroxy dehydrogenase
family. This group contains a variety of proteins
variously identified as glycerate dehydrogenase (GDH,
aka Hydroxypyruvate Reductase) and other enzymes of the
2-hydroxyacid dehydrogenase family. GDH catalyzes the
reversible reaction of (R)-glycerate + NAD+ to
hydroxypyruvate + NADH + H+. 2-hydroxyacid
dehydrogenases catalyze the conversion of a wide variety
of D-2-hydroxy acids to their corresponding keto acids.
The general mechanism is (R)-lactate + acceptor to
pyruvate + reduced acceptor. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. While many members of
this family are dimeric, alanine DH is hexameric and
phosphoglycerate DH is tetrameric.
Length = 315
Score = 203 bits (519), Expect = 1e-61
Identities = 98/270 (36%), Positives = 140/270 (51%), Gaps = 26/270 (9%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
L E +E K L++I +GVD++D++A E GI V N GY E VA+ T+ L ++L
Sbjct: 59 LPGEVIEACKNLKMISVAFTGVDHVDLEACKERGITVSNAAGYSTEAVAELTIGLAIDLL 118
Query: 142 RRTYWLANMVREGKK---FTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFG 198
R VR G G E + G T+GIVG G IG VA KAFG
Sbjct: 119 RNIVPCDAAVRAGGTKAGLIGRE-----------LAGKTVGIVGTGAIGLRVARLFKAFG 167
Query: 199 FNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRP 258
V+ Y + K+LG+ V +L +LL +SD VSLH LN+ LI + + M+
Sbjct: 168 CKVLAYSRSEKEEA-KALGIEYV-SLDELLAESDIVSLHLPLNDETKGLIGKEKLALMKE 225
Query: 259 GAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP-----YNVFQGNLKDAPNILC 313
A L+NTARG +VD+++LA AL +G+I A +DV + EP Y + APN +
Sbjct: 226 SAILINTARGPVVDNEALADALNEGKIAGAGIDVFDMEPPLPADYPLLH-----APNTIL 280
Query: 314 TPHAAFYSEASCTELREMAASEIRRAIVGR 343
TPH AF +E + + E+ I + G+
Sbjct: 281 TPHVAFATEEAMEKRAEIVFDNIEAWLAGK 310
>gnl|CDD|240662 cd12186, LDH, D-Lactate dehydrogenase and D-2-Hydroxyisocaproic
acid dehydrogenase (D-HicDH), NAD-binding and catalytic
domains. D-Lactate dehydrogenase (LDH) catalyzes the
interconversion of pyruvate and lactate, and is a member
of the 2-hydroxyacid dehydrogenases family. LDH is
homologous to D-2-hydroxyisocaproic acid
dehydrogenase(D-HicDH) and shares the 2 domain structure
of formate dehydrogenase. D-HicDH is a NAD-dependent
member of the hydroxycarboxylate dehydrogenase family,
and shares the Rossmann fold typical of many NAD binding
proteins. HicDH from Lactobacillus casei forms a monomer
and catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 329
Score = 203 bits (520), Expect = 2e-61
Identities = 106/276 (38%), Positives = 138/276 (50%), Gaps = 36/276 (13%)
Query: 78 HTIILTKEDLEKFK-------TLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVA 130
T+ +E EK LR GVD ID+ A E G+ + NVP Y +A
Sbjct: 52 QTLPYDEEVYEKLAEYGIKQIALRSA-----GVDMIDLDLAKENGLKITNVPAYSPRAIA 106
Query: 131 DTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCAR-IRGDTLGIVGLGRIGSA 189
+ + LNL R T + V +G R A R IR T+GI+G GRIGSA
Sbjct: 107 EFAVTQALNLLRNTPEIDRRVAKG-------DFRWAPGLIGREIRDLTVGIIGTGRIGSA 159
Query: 190 VALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLIN 249
A K FG VI YDPY +EK L +L+DLL Q+D +SLH L + NHHLIN
Sbjct: 160 AAKIFKGFGAKVIAYDPYPNPELEK-FLLYYD-SLEDLLKQADIISLHVPLTKENHHLIN 217
Query: 250 EFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESE------------- 296
+M+ GA LVN ARGGLVD +L AL G+I AALD +E+E
Sbjct: 218 AEAFAKMKDGAILVNAARGGLVDTKALIDALDSGKIAGAALDTYENETGYFNKDWSGKEI 277
Query: 297 PYNVFQGNLKDAPNILCTPHAAFYSEASCTELREMA 332
V + L PN+L TPH AFY++ + + E++
Sbjct: 278 EDEVLK-ELIAMPNVLITPHIAFYTDTAVKNMVEIS 312
>gnl|CDD|181414 PRK08410, PRK08410, 2-hydroxyacid dehydrogenase; Provisional.
Length = 311
Score = 201 bits (514), Expect = 7e-61
Identities = 101/324 (31%), Positives = 164/324 (50%), Gaps = 29/324 (8%)
Query: 31 VALLDGR---DCSIEMPILKDVATVAFCDAQSTSEIHEKVLNEAVGALMWHTIILTKEDL 87
+ +LD + D + + ++ S E+ E++ + + ++ + +++ KE L
Sbjct: 3 IVILDAKTLGDKDLS--VFEEFGDFQIYPTTSPEEVIERIKDANI--IITNKVVIDKEVL 58
Query: 88 EKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWL 147
+ L++I +G +N+D++ A + GIAV NV GY E VA T ++L+L R +
Sbjct: 59 SQLPNLKLICITATGTNNVDIEYAKKKGIAVKNVAGYSTESVAQHTFAMLLSLLGRINYY 118
Query: 148 ANMVREGK-----KFTG-PEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNV 201
V+ G+ FT L E I+G GI+GLG IG VA A+AFG V
Sbjct: 119 DRYVKSGEYSESPIFTHISRPLGE-------IKGKKWGIIGLGTIGKRVAKIAQAFGAKV 171
Query: 202 IFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAF 261
++Y G K+ RV +L++LL SD +S+H LNE +LI +K ++ GA
Sbjct: 172 VYYST---SGKNKNEEYERV-SLEELLKTSDIISIHAPLNEKTKNLIAYKELKLLKDGAI 227
Query: 262 LVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP---YNVFQGNLKDAPNILCTPHAA 318
L+N RGG+V++ LA AL + I A LDV E EP + ++K+ +L TPH A
Sbjct: 228 LINVGRGGIVNEKDLAKALDEKDI-YAGLDVLEKEPMEKNHPLL-SIKNKEKLLITPHIA 285
Query: 319 FYSEASCTELREMAASEIRRAIVG 342
+ S+ + L E I+ + G
Sbjct: 286 WASKEARKTLIEKVKENIKDFLEG 309
>gnl|CDD|240659 cd12183, LDH_like_2, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2-domain structure of formate dehydrogenase.
D-2-hydroxyisocaproate dehydrogenase-like (HicDH)
proteins are NAD-dependent members of the
hydroxycarboxylate dehydrogenase family, and share the
Rossmann fold typical of many NAD binding proteins.
HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 328
Score = 201 bits (513), Expect = 2e-60
Identities = 94/237 (39%), Positives = 130/237 (54%), Gaps = 29/237 (12%)
Query: 102 GVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREG----KKF 157
G +N+D+KAA ELGI V VP Y VA+ + L+L L R+ + N VREG
Sbjct: 78 GFNNVDLKAAKELGITVVRVPAYSPYAVAEHAVALLLALNRKIHRAYNRVREGNFSLDGL 137
Query: 158 TGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLG 217
G + + G T+G++G G+IG A A K FG V+ YDPY P+ LG
Sbjct: 138 LGFD-----------LHGKTVGVIGTGKIGQAFARILKGFGCRVLAYDPY-PNPELAKLG 185
Query: 218 LTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLA 277
+ V L +LL +SD +SLHC L HHLIN TI +M+ G L+NT+RGGL+D +L
Sbjct: 186 VEYV-DLDELLAESDIISLHCPLTPETHHLINAETIAKMKDGVMLINTSRGGLIDTKALI 244
Query: 278 AALKQGRIRAAALDVHESEPYNVFQGN----LKDA--------PNILCTPHAAFYSE 322
ALK G+I LDV+E E F+ + ++D PN+L T H AF+++
Sbjct: 245 EALKSGKIGGLGLDVYEEEAGLFFEDHSDEIIQDDVLARLLSFPNVLITGHQAFFTK 301
>gnl|CDD|233358 TIGR01327, PGDH, D-3-phosphoglycerate dehydrogenase. This model
represents a long form of D-3-phosphoglycerate
dehydrogenase, the serA gene of one pathway of serine
biosynthesis. Shorter forms, scoring between trusted and
noise cutoff, include SerA from E. coli [Amino acid
biosynthesis, Serine family].
Length = 525
Score = 204 bits (522), Expect = 1e-59
Identities = 103/280 (36%), Positives = 146/280 (52%), Gaps = 28/280 (10%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
+T+E + L++I R G GVDNID++AA GI V N P A+ L ++L
Sbjct: 52 VTEEVIAAAPKLKVIGRAGVGVDNIDIEAATARGILVVNAPTGNTISAAEHALAMLLAAA 111
Query: 142 RRTYWLANMVREG----KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAF 197
R ++EG K F G E + G TLG++GLGRIGS VA RAKAF
Sbjct: 112 RNIPQADASLKEGEWDRKAFMGTE-----------LYGKTLGVIGLGRIGSIVAKRAKAF 160
Query: 198 GFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMR 257
G V+ YDPY+ + LG+ V L +LL ++D +++H L LI + +M+
Sbjct: 161 GMKVLAYDPYISPERAEQLGVELVDDLDELLARADFITVHTPLTPETRGLIGAEELAKMK 220
Query: 258 PGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHA 317
G +VN ARGG++D+ +L AL++G +RAAALDV E EP L D N++ TPH
Sbjct: 221 KGVIIVNCARGGIIDEAALYEALEEGHVRAAALDVFEKEPPT--DNPLFDLDNVIATPHL 278
Query: 318 AFYSEASCTELRE----MAASEIRRAIVGRIPDCLRNCVN 353
AS E +E A ++ A+ G + N VN
Sbjct: 279 G----ASTREAQENVATQVAEQVLDALKG---LPVPNAVN 311
>gnl|CDD|240661 cd12185, HGDH_LDH_like, Putative Lactate dehydrogenase and
(R)-2-Hydroxyglutarate Dehydrogenase-like proteins,
NAD-binding and catalytic domains. This group contains
various putative dehydrogenases related to D-lactate
dehydrogenase (LDH), (R)-2-hydroxyglutarate
dehydrogenase (HGDH), and related enzymes, members of
the 2-hydroxyacid dehydrogenases family. LDH catalyzes
the interconversion of pyruvate and lactate, and HGDH
catalyzes the NAD-dependent reduction of 2-oxoglutarate
to (R)-2-hydroxyglutarate. Despite often low sequence
identity within this 2-hydroxyacid dehydrogenase family,
these proteins typically have a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD+ binding domain
is inserted within the linear sequence of the mostly
N-terminal catalytic domain, which has a similar domain
structure to the internal NAD binding domain.
Structurally, these domains are connected by extended
alpha helices and create a cleft in which NAD is bound,
primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 322
Score = 185 bits (473), Expect = 1e-54
Identities = 100/281 (35%), Positives = 145/281 (51%), Gaps = 42/281 (14%)
Query: 78 HTIILTKEDLEKFKTL-------RIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVA 130
++ E LEK K R I G D+ID+ AA ELGI V NV Y VA
Sbjct: 52 GKSKISAELLEKLKEAGVKYISTRSI-----GYDHIDLDAAKELGIKVSNVT-YSPNSVA 105
Query: 131 DTTLCLILNLYRRTYWLANMVR-EGKKFT-GPEQLREAASGCARIRGDTLGIVGLGRIGS 188
D T+ L+L R+ + M R E ++ G Q RE +R T+G++G GRIG
Sbjct: 106 DYTVMLMLMALRKYKQI--MKRAEVNDYSLGGLQGRE-------LRNLTVGVIGTGRIGQ 156
Query: 189 AVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLI 248
AV FG ++ YDPY + ++K V L L +SD ++LH L E +HLI
Sbjct: 157 AVIKNLSGFGCKILAYDPYPNEEVKK--YAEYV-DLDTLYKESDIITLHTPLTEETYHLI 213
Query: 249 NEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP---YNVFQGN- 304
N+ +I +M+ G ++NTARG L+D ++L L+ G+I AALDV E E YN +G+
Sbjct: 214 NKESIAKMKDGVIIINTARGELIDTEALIEGLESGKIGGAALDVIEGEDGIYYNDRKGDI 273
Query: 305 --------LKDAPNILCTPHAAFYSEASCTELREMAASEIR 337
L+ PN++ TPH AFY++ + + +M + I
Sbjct: 274 LSNRELAILRSFPNVILTPHMAFYTDQA---VSDMVENSIE 311
>gnl|CDD|240646 cd12169, PGDH_like_1, Putative D-3-Phosphoglycerate Dehydrogenases.
Phosphoglycerate dehydrogenases (PGDHs) catalyze the
initial step in the biosynthesis of L-serine from
D-3-phosphoglycerate. PGDHs come in 3 distinct
structural forms, with this first group being related to
2-hydroxy acid dehydrogenases, sharing structural
similarity to formate and glycerate dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily,
which also include groups such as L-alanine
dehydrogenase and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. Many, not all,
members of this family are dimeric.
Length = 308
Score = 184 bits (470), Expect = 2e-54
Identities = 90/240 (37%), Positives = 124/240 (51%), Gaps = 13/240 (5%)
Query: 87 LEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYW 146
LE+ L+++V G +ID+ AA E GI VC G G A+ T LIL L R
Sbjct: 64 LERLPNLKLLVTTGMRNASIDLAAAKERGIVVCGTGG-GPTATAELTWALILALARNLPE 122
Query: 147 LANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDP 206
+R G T + G TLGIVGLGRIG+ VA +AFG VI +
Sbjct: 123 EDAALRAGGWQTTLGT---------GLAGKTLGIVGLGRIGARVARIGQAFGMRVIAWSS 173
Query: 207 YLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTA 266
L + G+ + ++L SD VSLH L++ L+ + M+P A LVNT+
Sbjct: 174 NLTAERAAAAGVEAAVSKEELFATSDVVSLHLVLSDRTRGLVGAEDLALMKPTALLVNTS 233
Query: 267 RGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN-LKDAPNILCTPHAAFYSEASC 325
RG LVD+ +L AAL+ GRI AALDV + EP + + L+ PN+L TPH + +E +
Sbjct: 234 RGPLVDEGALLAALRAGRIAGAALDVFDVEP--LPADHPLRGLPNVLLTPHIGYVTEEAY 291
>gnl|CDD|183914 PRK13243, PRK13243, glyoxylate reductase; Reviewed.
Length = 333
Score = 185 bits (471), Expect = 3e-54
Identities = 104/275 (37%), Positives = 136/275 (49%), Gaps = 12/275 (4%)
Query: 84 KEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRR 143
E E LRI+ G DNIDV+ A GI V N PG E AD L+L RR
Sbjct: 59 CEVFEAAPRLRIVANYAVGYDNIDVEEATRRGIYVTNTPGVLTEATADFAWALLLATARR 118
Query: 144 TYWLANMVREG---KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFN 200
+ VR G ++ L + G T+GI+G GRIG AVA RAK FG
Sbjct: 119 LVEADHFVRSGEWKRRGVAWHPLMFLGYD---VYGKTIGIIGFGRIGQAVARRAKGFGMR 175
Query: 201 VIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGA 260
+++Y EK LG L++LL +SD VSLH L + +H+INE +K M+P A
Sbjct: 176 ILYYSRTRKPEAEKELGAEYR-PLEELLRESDFVSLHVPLTKETYHMINEERLKLMKPTA 234
Query: 261 FLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFY 320
LVNTARG +VD +L ALK+G I A LDV E EPY L N++ PH
Sbjct: 235 ILVNTARGKVVDTKALVKALKEGWIAGAGLDVFEEEPYY--NEELFSLKNVVLAPHIGSA 292
Query: 321 SEASCTELREMAASEIRRAIVGRIPDCLRNCVNKE 355
+ + + E+ A + G +P L VN+E
Sbjct: 293 TFEAREGMAELVAENLIAFKRGEVPPTL---VNRE 324
>gnl|CDD|235890 PRK06932, PRK06932, glycerate dehydrogenase; Provisional.
Length = 314
Score = 174 bits (442), Expect = 3e-50
Identities = 97/272 (35%), Positives = 141/272 (51%), Gaps = 33/272 (12%)
Query: 80 IILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILN 139
++ T+E L + L++I +G +N+D+ AA ELGIAV NV GY V + L +I
Sbjct: 53 VLFTRETLAQLPKLKLIAITATGTNNVDLVAAKELGIAVKNVTGYSSTTVPEHVLGMIFA 112
Query: 140 LYRRTYWLANMVREGKKFTGPEQLREAASGCAR----------IRGDTLGIVGLGRIGSA 189
L + L R+ QL + + C + +RG TLG+ G G +G+
Sbjct: 113 L---KHSLMGWYRD--------QLSDRWATCKQFCYFDYPITDVRGSTLGVFGKGCLGTE 161
Query: 190 VALRAKAFGFNVIFYDPYLPDGIEKSLGLTRV-YT-LQDLLFQSDCVSLHCTLNEHNHHL 247
V A+A G V++ + K + R YT +++L Q+D V+LHC L E +L
Sbjct: 162 VGRLAQALGMKVLYAE-------HKGASVCREGYTPFEEVLKQADIVTLHCPLTETTQNL 214
Query: 248 INEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP---YNVFQGN 304
IN T+ M+P AFL+NT RG LVD+ +L AL+ G+I AALDV EP N
Sbjct: 215 INAETLALMKPTAFLINTGRGPLVDEQALLDALENGKIAGAALDVLVKEPPEKDNPLIQA 274
Query: 305 LKDAPNILCTPHAAFYSEASCTELREMAASEI 336
K PN+L TPH A+ S+++ T L A I
Sbjct: 275 AKRLPNLLITPHIAWASDSAVTTLVNKVAQNI 306
>gnl|CDD|180588 PRK06487, PRK06487, glycerate dehydrogenase; Provisional.
Length = 317
Score = 173 bits (440), Expect = 6e-50
Identities = 106/307 (34%), Positives = 149/307 (48%), Gaps = 44/307 (14%)
Query: 56 DAQSTSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELG 115
DA + ++ E+ L A A+ + + L L L++I+ +G +N+D+ AA E G
Sbjct: 32 DATTPEQVAER-LRGAQVAIS-NKVALDAAALAAAPQLKLILVAATGTNNVDLAAARERG 89
Query: 116 IAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREG-----KKFTGPEQLREAASGC 170
I VCN GYG VA TL L+L L R V G +F +
Sbjct: 90 ITVCNCQGYGTPSVAQHTLALLLALATRLPDYQQAVAAGRWQQSSQFCLLD------FPI 143
Query: 171 ARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYD----PYLPDGIEKSLGLTRVYTLQD 226
+ G TLG++G G +G AVA A+AFG V+ P PD + L +
Sbjct: 144 VELEGKTLGLLGHGELGGAVARLAEAFGMRVLIGQLPGRPARPDRLP----------LDE 193
Query: 227 LLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIR 286
LL Q D ++LHC L EH HLI + M+PGA L+NTARGGLVD+ +LA AL+ G +
Sbjct: 194 LLPQVDALTLHCPLTEHTRHLIGARELALMKPGALLINTARGGLVDEQALADALRSGHLG 253
Query: 287 AAALDVHESEPYNVFQGN---LKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVGR 343
AA DV EP GN D P ++ TPH+A+ + E R+ IVG+
Sbjct: 254 GAATDVLSVEP--PVNGNPLLAPDIPRLIVTPHSAW------------GSREARQRIVGQ 299
Query: 344 IPDCLRN 350
+ + R
Sbjct: 300 LAENARA 306
>gnl|CDD|240633 cd12156, HPPR, Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific
2-hydroxyacid-related dehydrogenase.
Hydroxy(phenyl)pyruvate reductase (HPPR) catalyzes the
NADP-dependent reduction of hydroxyphenylpyruvates,
hydroxypyruvate, or pyruvate to its respective lactate.
HPPR acts as a dimer and is related to D-isomer-specific
2-hydroxyacid dehydrogenases, a superfamily that
includes groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-Adenosylhomocysteine Hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 301
Score = 162 bits (412), Expect = 5e-46
Identities = 84/249 (33%), Positives = 121/249 (48%), Gaps = 12/249 (4%)
Query: 70 EAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEV 129
+ L+ + L +I G G D ID+ AA GI V N PG ++V
Sbjct: 42 RIRAVVTNGETGLSAALIAALPALELIASFGVGYDGIDLDAARARGIRVTNTPGVLTDDV 101
Query: 130 ADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSA 189
AD + L+L + RR VR G+ G L ++ G +GIVGLGRIG A
Sbjct: 102 ADLAVGLLLAVLRRIPAADRFVRAGRWPKGAFPLT------RKVSGKRVGIVGLGRIGRA 155
Query: 190 VALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLIN 249
+A R +AFG + ++ + +L +L +SD + + C HL+N
Sbjct: 156 IARRLEAFGMEIAYHGRRPKPD----VPYRYYASLLELAAESDVLVVACPGGPATRHLVN 211
Query: 250 EFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAP 309
++ + P LVN ARG +VD+ +L AAL++GRI A LDV E+EP NV L D
Sbjct: 212 AEVLEALGPDGVLVNVARGSVVDEAALIAALQEGRIAGAGLDVFENEP-NVPAA-LLDLD 269
Query: 310 NILCTPHAA 318
N++ TPH A
Sbjct: 270 NVVLTPHIA 278
>gnl|CDD|240653 cd12176, PGDH_3, Phosphoglycerate dehydrogenases, NAD-binding and
catalytic domains. Phosphoglycerate dehydrogenases
(PGDHs) catalyze the initial step in the biosynthesis of
L-serine from D-3-phosphoglycerate. PGDHs come in 3
distinct structural forms, with this first group being
related to 2-hydroxy acid dehydrogenases, sharing
structural similarity to formate and glycerate
dehydrogenases. PGDH in E. coli and Mycobacterium
tuberculosis form tetramers, with subunits containing a
Rossmann-fold NAD binding domain. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence.
Length = 304
Score = 161 bits (409), Expect = 1e-45
Identities = 92/269 (34%), Positives = 135/269 (50%), Gaps = 29/269 (10%)
Query: 82 LTKEDLEKFKTLRIIVRIGS---GVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLIL 138
LT+E LE L + IG G + +D+ AA + GI V N P VA+ + I+
Sbjct: 54 LTEEVLEAAPKL---LAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGEII 110
Query: 139 NLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFG 198
L RR G ++A+G +RG TLGI+G G IGS +++ A+A G
Sbjct: 111 MLARRLPDRNAAAHRG-------IWNKSATGSHEVRGKTLGIIGYGHIGSQLSVLAEALG 163
Query: 199 FNVIFYDPYLPDGIEKSLGL---TRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQ 255
VIFYD I + L L +V +L++LL ++D V+LH ++I I Q
Sbjct: 164 MRVIFYD------IAEKLPLGNARQVSSLEELLAEADFVTLHVPATPSTKNMIGAEEIAQ 217
Query: 256 MRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYN---VFQGNLKDAPNIL 312
M+ GA L+N +RG +VD D+LA AL+ G + AA+DV EP + F L+ PN++
Sbjct: 218 MKKGAILINASRGTVVDIDALAEALRSGHLAGAAVDVFPEEPASNGEPFSSPLQGLPNVI 277
Query: 313 CTPHAAFYSEASCTELREMAASEIRRAIV 341
TPH S E +E E+ +V
Sbjct: 278 LTPHIG----GSTEEAQENIGLEVAGKLV 302
>gnl|CDD|240644 cd12167, 2-Hacid_dh_8, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 330
Score = 161 bits (409), Expect = 2e-45
Identities = 104/285 (36%), Positives = 138/285 (48%), Gaps = 17/285 (5%)
Query: 77 WHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCL 136
W T L E L + LR +V V + A E GI V + E VA+ TL
Sbjct: 57 WGTPPLDAELLARAPRLRAVVHAAGSVRGLVTDAVWERGILVTSAADANAEPVAEFTLAA 116
Query: 137 ILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKA 196
IL RR A R G+ + P + G + G T+GIVG GRIG AV +
Sbjct: 117 ILLALRRIPRFAAAYRAGRDWGWPTR-----RGGRGLYGRTVGIVGFGRIGRAVVELLRP 171
Query: 197 FGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQM 256
FG V+ YDPYLP +LG+ V +L +LL +SD VSLH L +I+ + M
Sbjct: 172 FGLRVLVYDPYLPAAEAAALGVELV-SLDELLARSDVVSLHAPLTPETRGMIDARLLALM 230
Query: 257 RPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPH 316
R GA +NTARG LVD+ +L A L+ GR+R AALDV + EP L+ PN+L TPH
Sbjct: 231 RDGATFINTARGALVDEAALLAELRSGRLR-AALDVTDPEPL-PPDSPLRTLPNVLLTPH 288
Query: 317 AAFYSEASCTELR---EMAASEIRRAIVGRIPDCLRNCVNKEYFP 358
A ++ E R + A E+ R + G + V E
Sbjct: 289 IA---GSTGDERRRLGDYALDELERFLAGEPL---LHEVTPERLA 327
>gnl|CDD|240627 cd05302, FDH, NAD-dependent Formate Dehydrogenase (FDH).
NAD-dependent formate dehydrogenase (FDH) catalyzes the
NAD+-dependent oxidation of a formate anion to carbon
dioxide coupled with the reduction of NAD+ to NADH.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxy acid dehydrogenase family have 2
highly similar subdomains of the alpha/beta form, with
NAD binding occurring in the cleft between subdomains.
NAD contacts are primarily to the Rossmann-fold
NAD-binding domain which is inserted within the linear
sequence of the more diverse flavodoxin-like catalytic
subdomain. Some related proteins have similar structural
subdomain but with a tandem arrangement of the catalytic
and NAD-binding subdomains in the linear sequence. FDHs
of this family contain no metal ions or prosthetic
groups. Catalysis occurs though direct transfer of the
hydride ion to NAD+ without the stages of acid-base
catalysis typically found in related dehydrogenases.
FDHs are found in all methylotrophic microorganisms in
energy production from C1 compounds such as methanol,
and in the stress responses of plants. NAD-dependent FDH
is useful in cofactor regeneration in asymmetrical
biocatalytic reduction processes, where FDH irreversibly
oxidizes formate to carbon dioxide, while reducing the
oxidized form of the cofactor to the reduced form.
Length = 348
Score = 158 bits (401), Expect = 5e-44
Identities = 80/224 (35%), Positives = 124/224 (55%), Gaps = 20/224 (8%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
+T E + K K L++ + G G D++D++AA + GI V V G V VA+ + +IL L
Sbjct: 74 MTAERIAKAKNLKLALTAGIGSDHVDLQAANDRGITVAEVTGSNVVSVAEHVVMMILILV 133
Query: 142 RRTYWLANMVREGKKFTGPEQLREAA---SGCAR----IRGDTLGIVGLGRIGSAVALRA 194
R N V G EQ E + + + G T+G VG GRIG V R
Sbjct: 134 R------NYV------PGHEQAIEGGWNVADVVKRAYDLEGKTVGTVGAGRIGLRVLRRL 181
Query: 195 KAFGFNVIFYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTI 253
K F ++++YD + LP+ +EK LGLTR L+D++ + D V+++C L+ L N+ +
Sbjct: 182 KPFDVHLLYYDRHRLPEEVEKELGLTRHADLEDMVSKCDVVTINCPLHPETEGLFNKELL 241
Query: 254 KQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP 297
+M+ GA+LVNTARG + D +++A AL+ G + A DV +P
Sbjct: 242 SKMKKGAYLVNTARGKICDREAVAEALESGHLAGYAGDVWFPQP 285
>gnl|CDD|240660 cd12184, HGDH_like, (R)-2-Hydroxyglutarate Dehydrogenase and
related dehydrogenases, NAD-binding and catalytic
domains. (R)-2-hydroxyglutarate dehydrogenase (HGDH)
catalyzes the NAD-dependent reduction of 2-oxoglutarate
to (R)-2-hydroxyglutarate. HGDH is a member of the
D-2-hydroxyacid NAD(+)-dependent dehydrogenase family;
these proteins typically have a characteristic
arrangement of 2 similar subdomains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD+ binding domain
is inserted within the linear sequence of the mostly
N-terminal catalytic domain, which has a similar domain
structure to the internal NAD binding domain.
Structurally, these domains are connected by extended
alpha helices and create a cleft in which NAD is bound,
primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 330
Score = 157 bits (399), Expect = 8e-44
Identities = 86/261 (32%), Positives = 125/261 (47%), Gaps = 31/261 (11%)
Query: 81 ILTKEDLEKFKTLRI---IVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLI 137
KE+LE +K I R G ++ID++AA ELG + VP Y +A+ L
Sbjct: 55 FADKENLEIYKEYGIKYVFTRT-VGFNHIDLEAAKELGFKMARVPSYSPNAIAELAFTLA 113
Query: 138 LNLYRRTYWLANMVREGKKFTGPEQL--REAASGCARIRGDTLGIVGLGRIGSAVALRAK 195
+ L R T + A+ K F + +E IR T+GI+G GRIG A K
Sbjct: 114 MTLSRHTAYTASRTAN-KNFKVDPFMFSKE-------IRNSTVGIIGTGRIGLTAAKLFK 165
Query: 196 AFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCT-LNEHNHHLINEFTIK 254
G VI YD Y D + + T V +L +LL +SD +SLH + N LIN+ I
Sbjct: 166 GLGAKVIGYDIYPSDAAKDVV--TFV-SLDELLKKSDIISLHVPYIKGKNDKLINKEFIS 222
Query: 255 QMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESE-------------PYNVF 301
+M+ GA L+NTARG L D++++ AL+ G++ DV +E V
Sbjct: 223 KMKDGAILINTARGELQDEEAILEALESGKLAGFGTDVLNNEKEIFFKDFDGDKIEDPVV 282
Query: 302 QGNLKDAPNILCTPHAAFYSE 322
+ L P +L TPH Y++
Sbjct: 283 EKLLDLYPRVLLTPHIGSYTD 303
>gnl|CDD|240634 cd12157, PTDH, Thermostable Phosphite Dehydrogenase. Phosphite
dehydrogenase (PTDH), a member of the D-specific
2-hydroxyacid dehydrogenase family, catalyzes the
NAD-dependent formation of phosphate from phosphite
(hydrogen phosphonate). PTDH has been suggested as a
potential enzyme for cofactor regeneration systems. The
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD-binding
domain.
Length = 318
Score = 154 bits (392), Expect = 5e-43
Identities = 95/291 (32%), Positives = 134/291 (46%), Gaps = 29/291 (9%)
Query: 59 STSEIHEKVLN-EAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIA 117
S E+ + + + + A M I + L+ L+II G DN DV+A GI
Sbjct: 34 SREELLRRCKDADGLMAFMPDRI--DADFLDACPRLKIIACALKGYDNFDVEACTARGIW 91
Query: 118 VCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDT 177
V VP E A+ T+ L++ L R VR GK F G + G T
Sbjct: 92 VTIVPDLLTEPTAELTIGLLIGLGRHILAGDRFVRSGK-FGGWRPKFYGTG----LDGKT 146
Query: 178 LGIVGLGRIGSAVALRAKAFGFNVIFYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSL 236
+GI+G+G +G A+A R FG +++YDP+ L E++L L RV L +LL SD + L
Sbjct: 147 VGILGMGALGRAIARRLSGFGATLLYYDPHPLDQAEEQALNLRRV-ELDELLESSDFLVL 205
Query: 237 HCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESE 296
L HLIN + +M+PGA LVN RG +VD+ ++A ALK G + A DV E E
Sbjct: 206 ALPLTPDTLHLINAEALAKMKPGALLVNPCRGSVVDEAAVAEALKSGHLGGYAADVFEME 265
Query: 297 -------PYNVFQGNLKDAPNILCTPHAAFYSEASCTELREMAASEIRRAI 340
P ++ Q L + TPH A E+R I
Sbjct: 266 DWARPDRPRSIPQELLDQHDRTVFTPHIG------------SAVDEVRLEI 304
>gnl|CDD|236985 PRK11790, PRK11790, D-3-phosphoglycerate dehydrogenase;
Provisional.
Length = 409
Score = 156 bits (397), Expect = 7e-43
Identities = 89/252 (35%), Positives = 127/252 (50%), Gaps = 41/252 (16%)
Query: 82 LTKEDLEKFKTLRIIVRIGS---GVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLIL 138
LT+E L + L V IG G + +D+ AA + GI V N P VA+ + I+
Sbjct: 65 LTEEVLAAAEKL---VAIGCFCIGTNQVDLDAAAKRGIPVFNAPFSNTRSVAELVIGEII 121
Query: 139 NLYRRTYWLANMVREGKKFTGPEQLREA--------ASGCARIRGDTLGIVGLGRIGSAV 190
L R PE+ +A A+G +RG TLGIVG G IG+ +
Sbjct: 122 LLLRGI---------------PEKNAKAHRGGWNKSAAGSFEVRGKTLGIVGYGHIGTQL 166
Query: 191 ALRAKAFGFNVIFYDPYLPDGIEKSLGL---TRVYTLQDLLFQSDCVSLHCTLNEHNHHL 247
++ A++ G V FYD IE L L +V +L++LL QSD VSLH ++
Sbjct: 167 SVLAESLGMRVYFYD------IEDKLPLGNARQVGSLEELLAQSDVVSLHVPETPSTKNM 220
Query: 248 INEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPY---NVFQGN 304
I + M+PGA L+N +RG +VD D+LA ALK G + AA+DV EP + F+
Sbjct: 221 IGAEELALMKPGAILINASRGTVVDIDALADALKSGHLAGAAIDVFPVEPKSNGDPFESP 280
Query: 305 LKDAPNILCTPH 316
L+ N++ TPH
Sbjct: 281 LRGLDNVILTPH 292
>gnl|CDD|240656 cd12179, 2-Hacid_dh_14, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 306
Score = 150 bits (380), Expect = 2e-41
Identities = 80/245 (32%), Positives = 117/245 (47%), Gaps = 23/245 (9%)
Query: 84 KEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRR 143
KE +EK L+ I R G+G++NID++ A E GI + N P + V + L ++L L+ +
Sbjct: 54 KEFIEKATNLKFIARAGAGLENIDLEYAKEKGIELFNAPEGNRDAVGEHALGMLLALFNK 113
Query: 144 TYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIF 203
VR G RE G + G T+GI+G G +G A A R FG VI
Sbjct: 114 LNRADQEVRNGI------WDREGNRG-VELMGKTVGIIGYGNMGKAFAKRLSGFGCKVIA 166
Query: 204 YDPYLPDGIEKSLGLTRV--YTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAF 261
YD K+ G +L+ L ++D +SLH L ++N+ I + +
Sbjct: 167 YD------KYKNFGDAYAEQVSLETLFKEADILSLHIPLTPETRGMVNKEFISSFKKPFY 220
Query: 262 LVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP---YNVFQGN-----LKDAPNILC 313
+NTARG +V L ALK G+I A LDV E E ++F L +P ++
Sbjct: 221 FINTARGKVVVTKDLVKALKSGKILGACLDVLEYEKASFESIFNQPEAFEYLIKSPKVIL 280
Query: 314 TPHAA 318
TPH A
Sbjct: 281 TPHIA 285
>gnl|CDD|181041 PRK07574, PRK07574, formate dehydrogenase; Provisional.
Length = 385
Score = 145 bits (369), Expect = 4e-39
Identities = 75/212 (35%), Positives = 112/212 (52%), Gaps = 6/212 (2%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLY 141
LT E + K L++ + G G D++D++AA E GI V V G VA+ + +IL L
Sbjct: 104 LTAERIAKAPNLKLAITAGIGSDHVDLQAASEHGITVAEVTGSNSISVAEHVVMMILALV 163
Query: 142 RRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNV 201
R EG + + S + G T+GIVG GRIG AV R K F +
Sbjct: 164 RNYEPSHRQAVEGG-----WNIADCVSRSYDLEGMTVGIVGAGRIGLAVLRRLKPFDVKL 218
Query: 202 IFYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGA 260
+ D + LP+ +E+ LGLT + L+ D V++HC L+ HL + + +M+ G+
Sbjct: 219 HYTDRHRLPEEVEQELGLTYHVSFDSLVSVCDVVTIHCPLHPETEHLFDADVLSRMKRGS 278
Query: 261 FLVNTARGGLVDDDSLAAALKQGRIRAAALDV 292
+LVNTARG +VD D++ AL+ G + A DV
Sbjct: 279 YLVNTARGKIVDRDAVVRALESGHLAGYAGDV 310
>gnl|CDD|181499 PRK08605, PRK08605, D-lactate dehydrogenase; Validated.
Length = 332
Score = 144 bits (364), Expect = 5e-39
Identities = 90/299 (30%), Positives = 138/299 (46%), Gaps = 39/299 (13%)
Query: 49 VATVAFCDAQSTSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDV 108
V V D S S+ L+EA+ L L + +I R +G D D+
Sbjct: 40 VEEVEGFDGLSLSQQIP--LSEAIYKL-----------LNELGIKQIAQR-SAGFDTYDL 85
Query: 109 KAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAAS 168
+ A + + + NVP Y E +A+ T+ +NL R + VRE R
Sbjct: 86 ELATKYNLIISNVPSYSPESIAEFTVTQAINLVRHFNQIQTKVRE-------HDFRWEPP 138
Query: 169 GCARIRGD-TLGIVGLGRIGSAVA-LRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQD 226
+R D + ++G GRIG AVA + AK +G +V+ YDP+ + T+++
Sbjct: 139 ILSRSIKDLKVAVIGTGRIGLAVAKIFAKGYGSDVVAYDPFPNAKAATYV--DYKDTIEE 196
Query: 227 LLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIR 286
+ +D V+LH ++NH+L N K + GA VN ARG LVD +L AL G I+
Sbjct: 197 AVEGADIVTLHMPATKYNHYLFNADLFKHFKKGAVFVNCARGSLVDTKALLDALDNGLIK 256
Query: 287 AAALDVHESE----PYNVFQGN---------LKDAPNILCTPHAAFYSEASCTELREMA 332
AALD +E E P + +G L + +++ TPH AFY++A+ L A
Sbjct: 257 GAALDTYEFERPLFPSD-QRGQTINDPLLESLINREDVILTPHIAFYTDAAVKNLIVDA 314
>gnl|CDD|240635 cd12158, ErythrP_dh, D-Erythronate-4-Phosphate Dehydrogenase
NAD-binding and catalytic domains.
D-Erythronate-4-phosphate Dehydrogenase (E. coli gene
PdxB), a D-specific 2-hydroxyacid dehydrogenase family
member, catalyzes the NAD-dependent oxidation of
erythronate-4-phosphate, which is followed by
transamination to form 4-hydroxy-L-threonine-4-phosphate
within the de novo biosynthesis pathway of vitamin B6.
D-Erythronate-4-phosphate dehydrogenase has the common
architecture shared with D-isomer specific 2-hydroxyacid
dehydrogenases but contains an additional C-terminal
dimerization domain in addition to an NAD-binding domain
and the "lid" domain. The lid domain corresponds to the
catalytic domain of phosphoglycerate dehydrogenase and
other proteins of the D-isomer specific 2-hydroxyacid
dehydrogenase family, which include groups such as
formate dehydrogenase, glycerate dehydrogenase,
L-alanine dehydrogenase, and S-adenosylhomocysteine
hydrolase. Despite often low sequence identity, these
proteins typically have a characteristic arrangement of
2 similar subdomains of the alpha/beta Rossmann fold
NAD+ binding form. The NAD+ binding domain is inserted
within the linear sequence of the mostly N-terminal
catalytic domain, which has a similar domain structure
to the internal NAD binding domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD is bound, primarily to the
C-terminal portion of the 2nd (internal) domain. Some
related proteins have similar structural subdomain but
with a tandem arrangement of the catalytic and
NAD-binding subdomains in the linear sequence.
Length = 343
Score = 143 bits (364), Expect = 9e-39
Identities = 69/225 (30%), Positives = 106/225 (47%), Gaps = 36/225 (16%)
Query: 101 SGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGP 160
G D+ID E GI N PG VA+ L +L L +R
Sbjct: 66 IGTDHIDTDYLKERGIGFANAPGCNANSVAEYVLSALLVLAQR---------------QG 110
Query: 161 EQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTR 220
L+ T+GIVG+G +GS +A R +A G NV+ DP + E G
Sbjct: 111 FSLKGK----------TVGIVGVGNVGSRLARRLEALGMNVLLCDPPRAE-AEGDPGFV- 158
Query: 221 VYTLQDLLFQSDCVSLHCTLNEH----NHHLINEFTIKQMRPGAFLVNTARGGLVDDDSL 276
+L++LL ++D ++LH L +HL++E + ++PG L+N +RG ++D+ +L
Sbjct: 159 --SLEELLAEADIITLHVPLTRDGEHPTYHLLDEDFLAALKPGQILINASRGAVIDNQAL 216
Query: 277 AAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYS 321
A L++G+ LDV E+EP + L + TPH A YS
Sbjct: 217 LALLQRGKDLRVVLDVWENEP-EIDLELLDKV--DIATPHIAGYS 258
>gnl|CDD|240642 cd12165, 2-Hacid_dh_6, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 314
Score = 141 bits (357), Expect = 4e-38
Identities = 90/275 (32%), Positives = 132/275 (48%), Gaps = 21/275 (7%)
Query: 82 LTKED-LEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNL 140
LTKE+ L K L++I +GVD++ ++ E G+ V N G VA+ L LIL L
Sbjct: 49 LTKEEALAALKRLKLIQVPSAGVDHLPLERLPE-GVVVANNHGNS-PAVAEHALALILAL 106
Query: 141 YRRTYWLANMVREG--KKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFG 198
+R N +R G G E + +RG T+GI+G G IG +A KAFG
Sbjct: 107 AKRIVEYDNDLRRGIWHGRAGEEPESKE------LRGKTVGILGYGHIGREIARLLKAFG 160
Query: 199 FNVIFYD--PYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQM 256
VI P +G + L+ L + L Q+D V + L + LI + M
Sbjct: 161 MRVIGVSRSPKEDEGADFVGTLSD---LDEALEQADVVVVALPLTKQTRGLIGAAELAAM 217
Query: 257 RPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDV---HESEPYNVFQGNLK--DAPNI 311
+PGA LVN RG +VD+++L ALK+ I AA+DV + S V + PN+
Sbjct: 218 KPGAILVNVGRGPVVDEEALYEALKERPIAGAAIDVWWRYPSRGDPVAPSRYPFHELPNV 277
Query: 312 LCTPHAAFYSEASCTELREMAASEIRRAIVGRIPD 346
+ +PH A ++E + + AA IRR + G
Sbjct: 278 IMSPHNAGWTEETFRRRIDEAAENIRRYLRGEPLL 312
>gnl|CDD|240625 cd05300, 2-Hacid_dh_1, Putative D-isomer specific 2-hydroxyacid
dehydrogenase. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomains but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric. Formate dehydrogenase (FDH) catalyzes the
NAD+-dependent oxidation of formate ion to carbon
dioxide with the concomitant reduction of NAD+ to NADH.
FDHs of this family contain no metal ions or prosthetic
groups. Catalysis occurs though direct transfer of the
hydride ion to NAD+ without the stages of acid-base
catalysis typically found in related dehydrogenases.
FDHs are found in all methylotrophic microorganisms in
energy production and in the stress responses of plants.
Length = 313
Score = 139 bits (354), Expect = 1e-37
Identities = 85/268 (31%), Positives = 117/268 (43%), Gaps = 43/268 (16%)
Query: 70 EAVGALMWHTIILT----KEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPG-Y 124
E L ++L E L LR I +GVD + E + + N G +
Sbjct: 33 ELTEELADADVLLGNPPLPELLPAAPRLRWIQSTSAGVDALLFPELLERDVVLTNARGIF 92
Query: 125 GVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLG 184
G +A+ L +L R+ A E +++ +RE + G T+ IVGLG
Sbjct: 93 G-PPIAEYVLGYMLAFARKLPRYARNQAE-RRWQRRGPVRE-------LAGKTVLIVGLG 143
Query: 185 RIGSAVALRAKAFGFNVIFYDPYLPDGI-----EKSLGLTRVYT---LQDLLFQSDCVSL 236
IG +A RAKAFG VI G+ + VYT L +LL ++D V
Sbjct: 144 DIGREIARRAKAFGMRVI--------GVRRSGRPAPPVVDEVYTPDELDELLPEADYVVN 195
Query: 237 HCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESE 296
L L N M+PGA L+N RG +VD+D+L AL+ GRI AALDV E E
Sbjct: 196 ALPLTPETRGLFNAERFAAMKPGAVLINVGRGSVVDEDALIEALESGRIAGAALDVFEEE 255
Query: 297 PYNVFQGNLK------DAPNILCTPHAA 318
P L D PN++ TPH +
Sbjct: 256 P-------LPADSPLWDLPNVIITPHIS 276
>gnl|CDD|185307 PRK15409, PRK15409, bifunctional glyoxylate/hydroxypyruvate
reductase B; Provisional.
Length = 323
Score = 139 bits (352), Expect = 2e-37
Identities = 107/301 (35%), Positives = 139/301 (46%), Gaps = 23/301 (7%)
Query: 60 TSEIHEKVLNEAVGAL-MWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAV 118
T E H EA G L + LEK LR I G DN DV A I +
Sbjct: 35 TVEQHAAAFAEAEGLLGSGEKV--DAALLEKMPKLRAASTISVGYDNFDVDALTARKILL 92
Query: 119 CNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREG--KKFTGPEQLREAASGCARIRGD 176
+ P E VADT + L+L+ RR +A V+ G GP+ G +
Sbjct: 93 MHTPTVLTETVADTLMALVLSTARRVVEVAERVKAGEWTASIGPDWF-----GT-DVHHK 146
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNV-IFYDPYLP-DGIEKSLGLTRVYTLQDLLFQSDCV 234
TLGIVG+GRIG A+A RA FGFN+ I Y+ E+ R L LL +SD V
Sbjct: 147 TLGIVGMGRIGMALAQRAH-FGFNMPILYNARRHHKEAEERFN-ARYCDLDTLLQESDFV 204
Query: 235 SLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHE 294
+ L + HHL +M+ A +N RG +VD+++L AAL++G I AA LDV E
Sbjct: 205 CIILPLTDETHHLFGAEQFAKMKSSAIFINAGRGPVVDENALIAALQKGEIHAAGLDVFE 264
Query: 295 SEPYNVFQGNLKDAPNILCTPHAAFYSEASCT-ELR-EMAASEIRRAIVGRIPDCLRNCV 352
EP +V L PN++ PH S T E R MAA + I +NCV
Sbjct: 265 QEPLSV-DSPLLSLPNVVAVPHI-----GSATHETRYNMAACAVDNLIDALQGKVEKNCV 318
Query: 353 N 353
N
Sbjct: 319 N 319
>gnl|CDD|240632 cd12155, PGDH_1, Phosphoglycerate Dehydrogenase, 2-hydroxyacid
dehydrogenase family. Phosphoglycerate Dehydrogenase
(PGDH) catalyzes the NAD-dependent conversion of
3-phosphoglycerate into 3-phosphohydroxypyruvate, which
is the first step in serine biosynthesis.
Over-expression of PGDH has been implicated as
supporting proliferation of certain breast cancers,
while PGDH deficiency is linked to defects in mammalian
central nervous system development. PGDH is a member of
the 2-hydroxyacid dehydrogenase family, enzymes that
catalyze the conversion of a wide variety of D-2-hydroxy
acids to their corresponding keto acids. The general
mechanism is (R)-lactate + acceptor to pyruvate +
reduced acceptor. Formate/glycerate and related
dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-Adenosylhomocysteine Hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. While many members of
this family are dimeric, alanine DH is hexameric and
phosphoglycerate DH is tetrameric.
Length = 314
Score = 130 bits (330), Expect = 3e-34
Identities = 85/261 (32%), Positives = 122/261 (46%), Gaps = 41/261 (15%)
Query: 77 WHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCL 136
++ DL K K L+ I +GVD + ++ + GI + N G +A+ +
Sbjct: 46 YNPDFDEL-DLAKMKNLKWIQLYSAGVDYLPLEYIKKKGILLTNNSGIHSIPIAEWIVGY 104
Query: 137 ILNLYRRT-YWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAK 195
IL +Y+ N ++ KK+ L E + G T+ +G G IG +A R K
Sbjct: 105 ILEIYKGLKKAYKN--QKEKKWKMDSSLLE-------LYGKTILFLGTGSIGQEIAKRLK 155
Query: 196 AFGFNVIFYDPYLPDGIEKS----LGLTRVYTLQDL---LFQSDCV--SLHCTLNEHNHH 246
AFG VI G+ S + Y L++L L ++D V L T E HH
Sbjct: 156 AFGMKVI--------GVNTSGRDVEYFDKCYPLEELDEVLKEADIVVNVLPLT--EETHH 205
Query: 247 LINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLK 306
L +E +QM+ GA +N RG VD+D+L ALK +IR AALDV E EP K
Sbjct: 206 LFDEAFFEQMKKGALFINVGRGPSVDEDALIEALKNKQIRGAALDVFEEEPLP------K 259
Query: 307 DAP-----NILCTPHAAFYSE 322
D+P N+L TPH + SE
Sbjct: 260 DSPLWDLDNVLITPHISGVSE 280
>gnl|CDD|177941 PLN02306, PLN02306, hydroxypyruvate reductase.
Length = 386
Score = 124 bits (313), Expect = 2e-31
Identities = 82/264 (31%), Positives = 127/264 (48%), Gaps = 36/264 (13%)
Query: 102 GVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKK----- 156
G +N+DV+AA + GIAV N PG E A+ L L RR +R G
Sbjct: 96 GYNNVDVEAANKYGIAVGNTPGVLTETTAELAASLSLAAARRIVEADEFMRAGLYEGWLP 155
Query: 157 --FTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVA-LRAKAFGFNVIFYDPYLPDGIE 213
F G L ++G T+G++G GRIGSA A + + F N+I+YD Y +E
Sbjct: 156 HLFVG--NL---------LKGQTVGVIGAGRIGSAYARMMVEGFKMNLIYYDLYQSTRLE 204
Query: 214 KSLGL---------------TRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRP 258
K + R +++++L ++D +SLH L++ +HLIN+ + M+
Sbjct: 205 KFVTAYGQFLKANGEQPVTWKRASSMEEVLREADVISLHPVLDKTTYHLINKERLALMKK 264
Query: 259 GAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAA 318
A LVN +RG ++D+ +L LK + LDV E EPY + L D N + PH A
Sbjct: 265 EAVLVNASRGPVIDEVALVEHLKANPMFRVGLDVFEDEPY--MKPGLADMKNAVVVPHIA 322
Query: 319 FYSEASCTELREMAASEIRRAIVG 342
S+ + + +AA + + G
Sbjct: 323 SASKWTREGMATLAALNVLGKLKG 346
>gnl|CDD|215501 PLN02928, PLN02928, oxidoreductase family protein.
Length = 347
Score = 120 bits (304), Expect = 2e-30
Identities = 75/282 (26%), Positives = 130/282 (46%), Gaps = 29/282 (10%)
Query: 82 LTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGV---EEVADTTLCLIL 138
L + + + +++I++ G G++ +DV AA + GI V +P G A+ + L+L
Sbjct: 72 LDADIIARASQMKLIMQFGVGLEGVDVDAATKHGIKVARIPSEGTGNAASCAEMAIYLML 131
Query: 139 NLYRRTYWLANMVREGKKFTGP--EQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKA 196
L R+ + ++ ++ P + L G T+ I+G G IG +A R +
Sbjct: 132 GLLRKQNEMQISLK-ARRLGEPIGDTLF----------GKTVFILGYGAIGIELAKRLRP 180
Query: 197 FGFNVIFYDPYLPDGIEKSLGLT------------RVYTLQDLLFQSDCVSLHCTLNEHN 244
FG ++ E L + + + ++D V L CTL +
Sbjct: 181 FGVKLLATRRSWTSEPEDGLLIPNGDVDDLVDEKGGHEDIYEFAGEADIVVLCCTLTKET 240
Query: 245 HHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGN 304
++N+ + M+ GA LVN ARGGL+D D++ AAL+ G + A+DV SEP++
Sbjct: 241 AGIVNDEFLSSMKKGALLVNIARGGLLDYDAVLAALESGHLGGLAIDVAWSEPFDPDDPI 300
Query: 305 LKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVGRIPD 346
LK PN++ TPH A +E S + ++ + GR
Sbjct: 301 LK-HPNVIITPHVAGVTEYSYRSMGKIVGDAALQLHAGRPLT 341
>gnl|CDD|183550 PRK12480, PRK12480, D-lactate dehydrogenase; Provisional.
Length = 330
Score = 116 bits (291), Expect = 6e-29
Identities = 78/257 (30%), Positives = 125/257 (48%), Gaps = 24/257 (9%)
Query: 87 LEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYW 146
LE + +I R +G D D+ A + I + NVP Y E +A+ ++ + L L RR
Sbjct: 65 LESYGIKQIAQRT-AGFDMYDLDLAKKHNIVISNVPSYSPETIAEYSVSIALQLVRRFPD 123
Query: 147 LANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDP 206
+ V+ FT ++ ++ T+ I+G GRIG+A A FG + YD
Sbjct: 124 IERRVQA-HDFTWQAEIMSKP-----VKNMTVAIIGTGRIGAATAKIYAGFGATITAYDA 177
Query: 207 YLPDGIEKSLG-LTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNT 265
Y P+ K L LT ++++ + +D +SLH N+ ++HL ++ ++ GA LVN
Sbjct: 178 Y-PN---KDLDFLTYKDSVKEAIKDADIISLHVPANKESYHLFDKAMFDHVKKGAILVNA 233
Query: 266 ARGGLVDDDSLAAALKQGRIRAAALDVHESE-PYNVFQGNLKDA-----------PNILC 313
ARG +++ L AA+ G + AA+D +E+E Y KD IL
Sbjct: 234 ARGAVINTPDLIAAVNDGTLLGAAIDTYENEAAYFTNDWTNKDIDDKTLLELIEHERILV 293
Query: 314 TPHAAFYSEASCTELRE 330
TPH AF+S+ + L E
Sbjct: 294 TPHIAFFSDEAVQNLVE 310
>gnl|CDD|240657 cd12180, 2-Hacid_dh_15, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 308
Score = 114 bits (287), Expect = 2e-28
Identities = 59/180 (32%), Positives = 80/180 (44%), Gaps = 17/180 (9%)
Query: 171 ARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQ 230
+ G TLGIVG G IG A+A RA A G V+ G+ L +L +
Sbjct: 131 GSLAGSTLGIVGFGAIGQALARRALALGMRVLALRR--SGRPSDVPGVEAAADLAELFAR 188
Query: 231 SDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAAL 290
SD + L L HLIN + Q +PG L+N ARGGLVD ++L AL GRI A+L
Sbjct: 189 SDHLVLAAPLTPETRHLINADVLAQAKPGLHLINIARGGLVDQEALLEALDSGRISLASL 248
Query: 291 DVHESEP-------YNVFQGNLKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVGR 343
DV + EP Y P + +PH + + L + + R G+
Sbjct: 249 DVTDPEPLPEGHPLYT--------HPRVRLSPHTSAIAPDGRRNLADRFLENLARYRAGQ 300
>gnl|CDD|178684 PLN03139, PLN03139, formate dehydrogenase; Provisional.
Length = 386
Score = 106 bits (267), Expect = 3e-25
Identities = 75/246 (30%), Positives = 112/246 (45%), Gaps = 17/246 (6%)
Query: 77 WHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCL 136
+H +T E ++K K L +++ G G D+ID+ AA G+ V V G V VA+ L
Sbjct: 106 FHPAYVTAERIKKAKNLELLLTAGIGSDHIDLPAAAAAGLTVAEVTGSNVVSVAEDELMR 165
Query: 137 ILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKA 196
IL L R + V G+ + A + G T+G VG GRIG + R K
Sbjct: 166 ILILLRNFLPGYHQVVSGE-----WNVAGIAYRAYDLEGKTVGTVGAGRIGRLLLQRLKP 220
Query: 197 FGFNVIFYDPY-LPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQ 255
F N++++D + +EK G L +L + D V ++ L E + N+ I +
Sbjct: 221 FNCNLLYHDRLKMDPELEKETGAKFEEDLDAMLPKCDVVVINTPLTEKTRGMFNKERIAK 280
Query: 256 MRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKD-----APN 310
M+ G +VN ARG ++D ++A A G I DV +P KD PN
Sbjct: 281 MKKGVLIVNNARGAIMDTQAVADACSSGHIGGYGGDVWYPQPAP------KDHPWRYMPN 334
Query: 311 ILCTPH 316
TPH
Sbjct: 335 HAMTPH 340
>gnl|CDD|166874 PRK00257, PRK00257, erythronate-4-phosphate dehydrogenase;
Validated.
Length = 381
Score = 100 bits (251), Expect = 5e-23
Identities = 70/225 (31%), Positives = 103/225 (45%), Gaps = 38/225 (16%)
Query: 102 GVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPE 161
G D++D+ E GI + PG V D L +L L R EG
Sbjct: 68 GTDHLDLDYFAEAGITWSSAPGCNARGVVDYVLGSLLTLAER---------EG------- 111
Query: 162 QLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTRV 221
+ T G+VG G +G + + G+ V+ DP P +++ G
Sbjct: 112 ---------VDLAERTYGVVGAGHVGGRLVRVLRGLGWKVLVCDP--PR--QEAEGDGDF 158
Query: 222 YTLQDLLFQSDCVSLHCTLN-EHNH---HLINEFTIKQMRPGAFLVNTARGGLVDDDSLA 277
+L+ +L + D +SLH L E H HL++E + +RPGA+L+N +RG +VD+ +L
Sbjct: 159 VSLERILEECDVISLHTPLTKEGEHPTRHLLDEAFLASLRPGAWLINASRGAVVDNQALR 218
Query: 278 AALKQGRIRAAALDVHESEPYNVFQGNLKDAPN-ILCTPHAAFYS 321
AL G A LDV E EP Q +L+ A + TPH A YS
Sbjct: 219 EALLSGEDLDAVLDVWEGEP----QIDLELADLCTIATPHIAGYS 259
>gnl|CDD|240641 cd12164, GDH_like_2, Putative glycerate dehydrogenase and related
proteins of the D-specific 2-hydroxy dehydrogenase
family. This group contains a variety of proteins
variously identified as glycerate dehydrogenase (GDH,
also known as hydroxypyruvate reductase) and other
enzymes of the 2-hydroxyacid dehydrogenase family. GDH
catalyzes the reversible reaction of (R)-glycerate +
NAD+ to hydroxypyruvate + NADH + H+. 2-hydroxyacid
dehydrogenases catalyze the conversion of a wide variety
of D-2-hydroxy acids to their corresponding keto acids.
The general mechanism is (R)-lactate + acceptor to
pyruvate + reduced acceptor. Formate/glycerate and
related dehydrogenases of the D-specific 2-hydroxyacid
dehydrogenase superfamily include groups such as formate
dehydrogenase, glycerate dehydrogenase, L-alanine
dehydrogenase, and S-adenosylhomocysteine hydrolase.
Despite often low sequence identity, these proteins
typically have a characteristic arrangement of 2 similar
subdomains of the alpha/beta Rossmann-fold NAD+ binding
form. The NAD+ binding domain is inserted within the
linear sequence of the mostly N-terminal catalytic
domain, which has a similar domain structure to the
internal NAD binding domain. Structurally, these domains
are connected by extended alpha helices and create a
cleft in which NAD is bound, primarily to the C-terminal
portion of the 2nd (internal) domain. Some related
proteins have similar structural subdomain but with a
tandem arrangement of the catalytic and NAD-binding
subdomains in the linear sequence. While many members of
this family are dimeric, alanine DH is hexameric and
phosphoglycerate DH is tetrameric.
Length = 306
Score = 96.8 bits (242), Expect = 3e-22
Identities = 68/276 (24%), Positives = 103/276 (37%), Gaps = 57/276 (20%)
Query: 85 EDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNV--PGYGVEEVADTTLCLILNLYR 142
L + L+ I +G+GVD++ + + + PG + +A+ L +L L+R
Sbjct: 51 GLLARLPNLKAIFSLGAGVDHLL-ADPDLPDVPIVRLVDPGLA-QGMAEYVLAAVLRLHR 108
Query: 143 RTY----------WLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVAL 192
W R + +G++GLG +G+AVA
Sbjct: 109 DMDRYAAQQRRGVWKPLPQRPAAERR-------------------VGVLGLGELGAAVAR 149
Query: 193 RAKAFGFNVIFYD--PYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTL--NEHNHHLI 248
R A GF V + P +G+ G L L Q+D L C L ++
Sbjct: 150 RLAALGFPVSGWSRSPKDIEGVTCFHGEEG---LDAFLAQTD--ILVCLLPLTPETRGIL 204
Query: 249 NEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDA 308
N + ++ GA L+N RG + + L AAL G + A LDV E EP L
Sbjct: 205 NAELLARLPRGAALINVGRGPHLVEADLLAALDSGHLSGAVLDVFEQEP-------LPAD 257
Query: 309 ------PNILCTPHAAFYSEASCTELREMAASEIRR 338
P + TPH A + A IRR
Sbjct: 258 HPLWRHPRVTVTPHIA--AITDPDSAAAQVAENIRR 291
>gnl|CDD|240643 cd12166, 2-Hacid_dh_7, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 300
Score = 93.4 bits (233), Expect = 4e-21
Identities = 76/279 (27%), Positives = 109/279 (39%), Gaps = 51/279 (18%)
Query: 85 EDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEE--VADTTLCLILNLYR 142
E L LR++ + +G D + + E G+ +CN GV + A+ + LIL R
Sbjct: 53 EALRALPRLRVVQTLSAGYDGV-LPLLPE-GVTLCN--ARGVHDASTAELAVALILASLR 108
Query: 143 R--TYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFN 200
+ A + P + + IVG G IG A+ R F
Sbjct: 109 GLPRFVRAQARGRWEPRRTPS-----------LADRRVLIVGYGSIGRAIERRLAPFEVR 157
Query: 201 VIFYDPYLPDGIEKSLGLTRVYT-------------LQDLLFQSDCVSLHCTLNEHNHHL 247
V TRV L LL ++D V L L + L
Sbjct: 158 V-----------------TRVARTARPGEQVHGIDELPALLPEADVVVLIVPLTDETRGL 200
Query: 248 INEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKD 307
++ + +M GA LVN ARG +VD D+L A L GR+R AALDV + EP L
Sbjct: 201 VDAEFLARMPDGALLVNVARGPVVDTDALVAELASGRLR-AALDVTDPEPLPPGHP-LWS 258
Query: 308 APNILCTPHAAFYSEASCTELREMAASEIRRAIVGRIPD 346
AP +L TPH + A + ++RR G +
Sbjct: 259 APGVLITPHVGGATPAFLPRAYALVRRQLRRYAAGEPLE 297
>gnl|CDD|240636 cd12159, 2-Hacid_dh_2, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 303
Score = 92.7 bits (231), Expect = 7e-21
Identities = 70/207 (33%), Positives = 95/207 (45%), Gaps = 16/207 (7%)
Query: 115 GIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIR 174
G N G E VA+ L L+L R+ L R E +R
Sbjct: 73 GRRWTNAAGAYAETVAEHALALLLAGLRQ---LPARAR-----ATTWDPAEEDDLVTLLR 124
Query: 175 GDTLGIVGLGRIGSAVALRAKAFGFNVIFYD--PYLPDGIEKSLGLTRVYTLQDLLFQSD 232
G T+ IVG G IG A+ FG VI + +G ++++ R L ++ +D
Sbjct: 125 GSTVAIVGAGGIGRALIPLLAPFGAKVIAVNRSGRPVEGADETVPADR---LDEVWPDAD 181
Query: 233 CVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDV 292
V L L HL++ + M+P A+LVN ARG LVD D+L AL+ G I AALDV
Sbjct: 182 HVVLAAPLTPETRHLVDAAALAAMKPHAWLVNVARGPLVDTDALVDALRSGEIAGAALDV 241
Query: 293 HESEPYNVFQGN-LKDAPNILCTPHAA 318
+ EP + G+ L PN L TPH A
Sbjct: 242 TDPEP--LPDGHPLWSLPNALITPHVA 266
>gnl|CDD|235800 PRK06436, PRK06436, glycerate dehydrogenase; Provisional.
Length = 303
Score = 84.5 bits (209), Expect = 5e-18
Identities = 72/278 (25%), Positives = 119/278 (42%), Gaps = 25/278 (8%)
Query: 80 IILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTTLCLILN 139
IL K K ++I + +GVD+IDV E + N Y + VA+ L+L
Sbjct: 37 AILIKGRYVPGKKTKMIQSLSAGVDHIDVSGIPENVVLCSNAGAYSIS-VAEHAFALLLA 95
Query: 140 LYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGF 199
+ ++ G P +L + +LGI+G G IG VAL AKAFG
Sbjct: 96 WAKNICENNYNMKNGNFKQSPTKL---------LYNKSLGILGYGGIGRRVALLAKAFGM 146
Query: 200 NVIFYDPYLPDGIEKSLGLTRVY-TLQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRP 258
N+ Y + G++ +Y +D++ +SD V + L + +IN + R
Sbjct: 147 NIYAYTRSYVND-----GISSIYMEPEDIMKKSDFVLISLPLTDETRGMINSKMLSLFRK 201
Query: 259 GAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAA 318
G ++N AR +VD + + L+ + DV +EP + + N N++ +PH A
Sbjct: 202 GLAIINVARADVVDKNDMLNFLRNHNDKYYLSDVWWNEP-IITETNPD---NVILSPHVA 257
Query: 319 FYSEASCTELR-EMAASEIRRAIVGRIPDCLRNCVNKE 355
+ +A I+ G+ P +N V KE
Sbjct: 258 GGMSGEIMQPAVALAFENIKNFFEGK-P---KNIVRKE 291
>gnl|CDD|240637 cd12160, 2-Hacid_dh_3, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 310
Score = 80.9 bits (200), Expect = 7e-17
Identities = 77/237 (32%), Positives = 110/237 (46%), Gaps = 24/237 (10%)
Query: 93 LRIIVRIGSGVDNIDVKAAG-ELGIAVCNVPGYGVEEVADTTLCLILNLYRRTYWLANMV 151
LR + + +G D V AAG +AV + G VA+ TL LIL RR +
Sbjct: 60 LRWVQALAAGPD--AVLAAGFAPEVAVTSGRGLHDGTVAEHTLALILAAVRRLDEMREAQ 117
Query: 152 REGK---KFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYL 208
RE + + G + LR A + G + I G G IG +A A G V
Sbjct: 118 REHRWAGELGGLQPLRPA-GRLTTLLGARVLIWGFGSIGQRLAPLLTALGARVT------ 170
Query: 209 PDGIEKSLGLTR----VYT---LQDLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAF 261
G+ +S G R V L +LL ++D + + H ++ + + A+
Sbjct: 171 --GVARSAG-ERAGFPVVAEDELPELLPETDVLVMILPATPSTAHALDAEVLAALPKHAW 227
Query: 262 LVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAA 318
+VN RG VD+D+L AAL+ GR+ AALDV +EP L DAPN++ TPHAA
Sbjct: 228 VVNVGRGATVDEDALVAALESGRLGGAALDVTATEPLPA-SSPLWDAPNLILTPHAA 283
>gnl|CDD|240640 cd12163, 2-Hacid_dh_5, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 334
Score = 76.9 bits (190), Expect = 2e-15
Identities = 62/173 (35%), Positives = 74/173 (42%), Gaps = 38/173 (21%)
Query: 174 RGDTLGIVGLGRIGSAVALRAKAFGFNVIFY-------------DPYL------PDGI-- 212
G +GI+G G IG A A+A G V Y D Y+ PDG
Sbjct: 132 VGKRVGILGYGSIGRQTARLAQALGMEVYAYTRSPRPTPESRKDDGYIVPGTGDPDGSIP 191
Query: 213 ------EKSLGLTRVYTLQ-DLLFQSDCVSLHCTLNEHNHHLIN--EFTIKQMRPGAFLV 263
L DLL VSL L HL+ EF I R F+
Sbjct: 192 SAWFSGTDKASLHEFLRQDLDLLV----VSL--PLTPATKHLLGAEEFEILAKR-KTFVS 244
Query: 264 NTARGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPH 316
N ARG LVD D+L AAL+ G+IR AALDV + EP L APN++ TPH
Sbjct: 245 NIARGSLVDTDALVAALESGQIRGAALDVTDPEPLPA-DHPLWSAPNVIITPH 296
>gnl|CDD|185335 PRK15438, PRK15438, erythronate-4-phosphate dehydrogenase PdxB;
Provisional.
Length = 378
Score = 76.1 bits (187), Expect = 6e-15
Identities = 68/253 (26%), Positives = 109/253 (43%), Gaps = 38/253 (15%)
Query: 74 ALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTT 133
ALM ++ E L K ++ + +G D++D + GI PG V +
Sbjct: 40 ALMVRSVTKVNESLLAGKPIKFVGTATAGTDHVDEAWLKQAGIGFSAAPGCNAIAVVEYV 99
Query: 134 LCLILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALR 193
+L M+ E F+ + T+GIVG+G +G + R
Sbjct: 100 FSSLL-----------MLAERDGFS--------------LHDRTVGIVGVGNVGRRLQAR 134
Query: 194 AKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNH----HLIN 249
+A G + DP P G R +L +L+ ++D ++ H L + HL +
Sbjct: 135 LEALGIKTLLCDP--PRADRGDEGDFR--SLDELVQEADILTFHTPLFKDGPYKTLHLAD 190
Query: 250 EFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVHESEP-YNVFQGNLKDA 308
E I+ ++PGA L+N RG +VD+ +L L +G+ + LDV E EP NV D
Sbjct: 191 EKLIRSLKPGAILINACRGAVVDNTALLTCLNEGQKLSVVLDVWEGEPELNVELLKKVD- 249
Query: 309 PNILCTPHAAFYS 321
+ TPH A Y+
Sbjct: 250 ---IGTPHIAGYT 259
>gnl|CDD|240647 cd12170, 2-Hacid_dh_9, Putative D-isomer specific 2-hydroxyacid
dehydrogenases. 2-Hydroxyacid dehydrogenases catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 294
Score = 75.0 bits (185), Expect = 6e-15
Identities = 70/282 (24%), Positives = 111/282 (39%), Gaps = 57/282 (20%)
Query: 58 QSTSEIHEKVLNEAVGALMWHTIILTKEDLEKFKTLRIIVRIGSGVD----NIDVKAAGE 113
+S EI E++ + + + T I +E LE ++ I S N+D+ AA E
Sbjct: 35 ESDEEIIERIGDADCVLVSYTTQI-DEEVLEACPNIKYIGMCCSLYSEESANVDIAAARE 93
Query: 114 LGIAVCNVPGYGVEEVADTTLC-LI--LNLYRRTYWLANMVREGKKFTGPEQLREAASGC 170
GI V + YG E V + + LI L+ + W RE
Sbjct: 94 NGITVTGIRDYGDEGVVEYVISELIRLLHGFGGKQWK-EEPRE----------------- 135
Query: 171 ARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFYD-PYLPDGIEKSLGLTRVYTLQDLLF 229
+ G +GI+GLG G +A FG +V +Y PD K + R L +LL
Sbjct: 136 --LTGLKVGIIGLGTTGQMIADALSFFGADVYYYSRTRKPDAEAKGI---RYLPLNELLK 190
Query: 230 QSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAA 289
D + L + N L+ E + + G L NT+ G + ++L LK
Sbjct: 191 TVDVICTC--LPK-NVILLGEEEFELLGDGKILFNTSLGPSFEVEALKKWLK-------- 239
Query: 290 LDVHESEPYNVFQGN---------LKDAPNILCTPHAAFYSE 322
+ YN+F + L PN++CT +A ++
Sbjct: 240 -----ASGYNIFDCDTAGALGDEELLRYPNVICTNKSAGWTR 276
>gnl|CDD|240631 cd12154, FDH_GDH_like, Formate/glycerate dehydrogenases, D-specific
2-hydroxy acid dehydrogenases and related
dehydrogenases. The formate/glycerate dehydrogenase
like family contains a diverse group of enzymes such as
formate dehydrogenase (FDH), glycerate dehydrogenase
(GDH), D-lactate dehydrogenase, L-alanine dehydrogenase,
and S-Adenosylhomocysteine hydrolase, that share a
common 2-domain structure. Despite often low sequence
identity, these proteins typically have a characteristic
arrangement of 2 similar domains of the alpha/beta
Rossmann fold NAD+ binding form. The NAD(P) binding
domain is inserted within the linear sequence of the
mostly N-terminal catalytic domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD(P) is bound, primarily to
the C-terminal portion of the 2nd (internal) domain.
While many members of this family are dimeric, alanine
DH is hexameric and phosphoglycerate DH is tetrameric.
2-hydroxyacid dehydrogenases are enzymes that catalyze
the conversion of a wide variety of D-2-hydroxy acids to
their corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate dehydrogenase (FDH) catalyzes the NAD+-dependent
oxidation of formate ion to carbon dioxide with the
concomitant reduction of NAD+ to NADH. FDHs of this
family contain no metal ions or prosthetic groups.
Catalysis occurs though direct transfer of a hydride ion
to NAD+ without the stages of acid-base catalysis
typically found in related dehydrogenases.
Length = 310
Score = 64.9 bits (158), Expect = 2e-11
Identities = 48/217 (22%), Positives = 80/217 (36%), Gaps = 17/217 (7%)
Query: 86 DLEKFKTLRIIVRIGSGVDNIDVK-AAGELGIAVCNVPGYGVEEVADTTLCLILNLYRRT 144
L + R++ G D+ D+ A G+ V G L N
Sbjct: 81 ALIQKLGDRLLFTYTIGADHRDLTEALARAGLTAIAVEGV-------ELPLLTSNSIGAG 133
Query: 145 YWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVIFY 204
V+ +F Q G + G T+ +VG G +G A + G V+
Sbjct: 134 ELS---VQFIARFL-EVQQPGRLGGAPDVAGKTVVVVGAGVVGKEAAQMLRGLGAQVLIT 189
Query: 205 DPYLPDGIE--KSLGLTRVYTLQDLLFQSDCVSLHCTLNEHNHH-LINEFTIKQMRPGAF 261
D + +E + LG V L++ L ++D + L L+ E ++QM+PG+
Sbjct: 190 DI-NVEALEQLEELGGKNVEELEEALAEADVIVTTTLLPGKRAGILVPEELVEQMKPGSV 248
Query: 262 LVNTARGGLVDDD-SLAAALKQGRIRAAALDVHESEP 297
+VN A G + L++G DV+ P
Sbjct: 249 IVNVAVGAVGCVQALHTQLLEEGHGVVHYGDVNMPGP 285
>gnl|CDD|185366 PRK15469, ghrA, bifunctional glyoxylate/hydroxypyruvate reductase
A; Provisional.
Length = 312
Score = 54.0 bits (130), Expect = 6e-08
Identities = 72/265 (27%), Positives = 114/265 (43%), Gaps = 49/265 (18%)
Query: 74 ALMWHTIILTKEDLEKFKTLRIIVRIGSGVDNIDVKAAGELGIAVCNVPGYGVEEVADTT 133
AL+WH + ++ + L+ + +G+GVD+I K + +VP + +E DT
Sbjct: 42 ALVWHPPV----EMLAGRDLKAVFALGAGVDSILSKLQAHPEMLDPSVPLFRLE---DTG 94
Query: 134 LCL---------ILNLYRRTYWLANMVREGKKFTGPEQLREAASGCARIRGDTLGIVGLG 184
+ +L+ +RR + PE RE T+GI+G G
Sbjct: 95 MGEQMQEYAVSQVLHWFRRFDDYQALQNSSHWQPLPEYHREDF---------TIGILGAG 145
Query: 185 RIGSAVALRAKAFGFNVIFYD------PYL-----PDGIEKSLGLTRVYTLQDLLFQSDC 233
+GS VA + +GF + + P + + + L TRV L +LL +
Sbjct: 146 VLGSKVAQSLQTWGFPLRCWSRSRKSWPGVQSFAGREELSAFLSQTRV--LINLLPNTPE 203
Query: 234 VSLHCTLNEHNHHLINEFTIKQMRPGAFLVNTARGGLVDDDSLAAALKQGRIRAAALDVH 293
T+ N L+ Q+ GA+L+N ARG V +D L AAL G+++ A LDV
Sbjct: 204 -----TVGIINQQLLE-----QLPDGAYLLNLARGVHVVEDDLLAALDSGKVKGAMLDVF 253
Query: 294 ESEPYNVFQGNLKDAPNILCTPHAA 318
EP + L P + TPH A
Sbjct: 254 SREPLPP-ESPLWQHPRVAITPHVA 277
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 48.8 bits (116), Expect = 7e-06
Identities = 39/160 (24%), Positives = 48/160 (30%), Gaps = 19/160 (11%)
Query: 358 PSAGGGGLPAGLNYPHAPP--GGPVSS----GPPGGPPGPGVVPEGINGGSS--SLVSRY 409
G P G P PP GP + P GPP P + S SL S +
Sbjct: 2743 AVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPW 2802
Query: 410 YAAAAAAAI----GTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSG-- 463
A AA+ LPP P ++ P G PPS GG P G
Sbjct: 2803 DPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDV 2862
Query: 464 -----GGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
P PA A P+ + + P
Sbjct: 2863 RRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPP 2902
Score = 41.5 bits (97), Expect = 0.001
Identities = 40/159 (25%), Positives = 56/159 (35%), Gaps = 26/159 (16%)
Query: 358 PSAGGGGLPAGLNYPHAP--------PGGPVSSGPPGGPPGPG--VVPEGINGGSSSLVS 407
P+A PA P P PGGP P GP P G ++
Sbjct: 2725 PAAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLT 2784
Query: 408 RYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPP---SGG 464
R A+ + + +LP +P D A PA PP+ S G PP +
Sbjct: 2785 RPAVASLSESRESLP--------SPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQP 2836
Query: 465 GPPPNTPAGLPHNLPLSTA-----DPSNHHPPKPESSEP 498
PP P P +LPL + D P + +++P
Sbjct: 2837 TAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKP 2875
Score = 38.4 bits (89), Expect = 0.010
Identities = 25/135 (18%), Positives = 32/135 (23%), Gaps = 4/135 (2%)
Query: 367 AGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQ 426
L P PP P P + P +S A A G P
Sbjct: 2696 TSLADPPPPPPTP-EPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPATPGGP 2754
Query: 427 AHSTTPHDSAIAPAPGSERG--GGAPPSGSGGGGAPPSGGGPP-PNTPAGLPHNLPLSTA 483
A P +A PAP G P + A S P+ +
Sbjct: 2755 ARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAP 2814
Query: 484 DPSNHHPPKPESSEP 498
+ P P
Sbjct: 2815 AAALPPAASPAGPLP 2829
Score = 36.8 bits (85), Expect = 0.029
Identities = 34/135 (25%), Positives = 42/135 (31%), Gaps = 7/135 (5%)
Query: 364 GLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPP 423
G P G P P P + P PP P + V A G +
Sbjct: 2606 GDPRGPAPPSPLP--PDTHAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSR 2663
Query: 424 VQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTA 483
++A A +P R P GS A P PPP TP PH L +A
Sbjct: 2664 PRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLADPP---PPPPTPEPAPH--ALVSA 2718
Query: 484 DPSNHHPPKPESSEP 498
P P + P
Sbjct: 2719 TPLPPGPAAARQASP 2733
Score = 35.7 bits (82), Expect = 0.079
Identities = 43/180 (23%), Positives = 55/180 (30%), Gaps = 18/180 (10%)
Query: 338 RAIVGRIPDCLRNCVNKEYFPSAGGGGLPAGLNYPHAPPGG--PVSSGP--PGGPPGPGV 393
R I+G + E FP A PA +P A P GP P PP P
Sbjct: 2457 RTILGAPFSLSL--LLGELFPGAPVYRRPAEARFPFAAGAAPDPGGGGPPDPDAPPAPSR 2514
Query: 394 ----------VPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQ-QAHSTTPHDSAIAPAPG 442
V E ++ + + A+ A PP+ A P S P P
Sbjct: 2515 LAPAILPDEPVGEPVHPRMLTWIRGLEELASDDAGDPPPPLPPAAPPAAPDRSVPPPRPA 2574
Query: 443 SERGGGAPPSGSGGGGAPPSGGGPP-PNTPAGLPHNLPLSTADPSNHHPPKPESSEPGVH 501
A S + APP P P G P + P + H P P P
Sbjct: 2575 PRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPA 2634
Score = 35.3 bits (81), Expect = 0.093
Identities = 29/126 (23%), Positives = 38/126 (30%), Gaps = 6/126 (4%)
Query: 375 PPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHD 434
P G ++S PP P PE S AAA P A P
Sbjct: 2690 PTVGSLTS--LADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPA---PPAV 2744
Query: 435 SAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPE 494
A PG PP+ +G AP P P L S ++ P +
Sbjct: 2745 PAGPATPGGPARPARPPTTAGPP-APAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWD 2803
Query: 495 SSEPGV 500
++P
Sbjct: 2804 PADPPA 2809
Score = 30.7 bits (69), Expect = 2.6
Identities = 26/135 (19%), Positives = 36/135 (26%), Gaps = 12/135 (8%)
Query: 376 PGGPVSSGPPGGPPGPGVVPEG---INGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTP 432
PGG V PP P + + VSR + A P Q P
Sbjct: 2858 PGGDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPP 2917
Query: 433 HDSAIAPAPGSERG---------GGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTA 483
P P + P+ G PSG P P A +P + +
Sbjct: 2918 QPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRF 2977
Query: 484 DPSNHHPPKPESSEP 498
P + +
Sbjct: 2978 RVPQPAPSREAPASS 2992
Score = 29.5 bits (66), Expect = 5.6
Identities = 32/150 (21%), Positives = 41/150 (27%), Gaps = 10/150 (6%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPV-SSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAA 416
PS PP P P G +SS R AA
Sbjct: 2631 PSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARP 2690
Query: 417 AIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGP-PPNTPAG-- 473
+G+L + P AP P + +P P PP PAG
Sbjct: 2691 TVGSLTSLADPPPP-PPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPA 2749
Query: 474 -----LPHNLPLSTADPSNHHPPKPESSEP 498
P +TA P PP ++ P
Sbjct: 2750 TPGGPARPARPPTTAGPPAPAPPAAPAAGP 2779
Score = 29.1 bits (65), Expect = 6.5
Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 3/78 (3%)
Query: 422 PPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLS 481
+ + H A P G + + P+ P A P PL
Sbjct: 379 SLPTRKRRSARH--AATPFARGPGGDDQTRPAAPVPASVPTPAPTPVPASAPPPPATPLP 436
Query: 482 TADP-SNHHPPKPESSEP 498
+A+P S+ P P +P
Sbjct: 437 SAEPGSDDGPAPPPERQP 454
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 46.9 bits (112), Expect = 2e-05
Identities = 19/136 (13%), Positives = 29/136 (21%), Gaps = 14/136 (10%)
Query: 365 LPAGLNYP-HAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPP 423
L L A + P P +++ + A A A P
Sbjct: 381 LERRLGVAGGAGAPAAAAPSAAAAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPA----PA 436
Query: 424 VQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTA 483
A + ++ AP + A P P P A
Sbjct: 437 PAPAPPSPAGNAPAGGAPSPPPAAAPSAQPAPAPAAAPEPTAAPAPAP---------PAA 487
Query: 484 DPSNHHPPKPESSEPG 499
P P +
Sbjct: 488 PAPAAAPAAPAAPAAP 503
Score = 45.4 bits (108), Expect = 7e-05
Identities = 28/156 (17%), Positives = 38/156 (24%), Gaps = 15/156 (9%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
+A + P G G ++ + A A AA
Sbjct: 631 GAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAP 690
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGG---PPPNTP--- 471
P P +A PA ++ PP + G AP P P P
Sbjct: 691 AA--PAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQGASAPSPAADDPVPLPPEPDDP 748
Query: 472 -------AGLPHNLPLSTADPSNHHPPKPESSEPGV 500
A P + A PP SE
Sbjct: 749 PDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPSEEEE 784
Score = 40.7 bits (96), Expect = 0.002
Identities = 25/152 (16%), Positives = 35/152 (23%), Gaps = 11/152 (7%)
Query: 348 LRNCVNKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVS 407
L + ++ A G P P P P
Sbjct: 574 LAEELGGDWQVEAVVGPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAP------ 627
Query: 408 RYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPP 467
A A AAA A + + G + GGA P+ P
Sbjct: 628 ---APAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPA 684
Query: 468 PNTPAGLPHNLPLSTADPSNHHPPKPESSEPG 499
P PA + A P+ P +
Sbjct: 685 P-APAAPAAPAGAAPAQPA-PAPAATPPAGQA 714
Score = 38.4 bits (90), Expect = 0.008
Identities = 23/126 (18%), Positives = 30/126 (23%)
Query: 376 PGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDS 435
G + GPP P + + A AA A G +A +
Sbjct: 588 VGPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGV 647
Query: 436 AIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPES 495
A G G A G P PA P P P +
Sbjct: 648 AAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAA 707
Query: 496 SEPGVH 501
+ P
Sbjct: 708 TPPAGQ 713
Score = 38.4 bits (90), Expect = 0.009
Identities = 28/147 (19%), Positives = 41/147 (27%), Gaps = 9/147 (6%)
Query: 358 PSAGGGGLPAGLNYPHAPPGG-PVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAA 416
+AGG G PA + P + P P P P G + + AA
Sbjct: 593 GAAGGEGPPAPASSGPPEEAARPAAPAAPAAPAAPA--PAGAAAAPAEASAAPAPGVAAP 650
Query: 417 AIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
+ D + A P + AP + G P PA P
Sbjct: 651 E----HHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPA 706
Query: 477 NLPLS--TADPSNHHPPKPESSEPGVH 501
P + DP+ P + +
Sbjct: 707 ATPPAGQADDPAAQPPQAAQGASAPSP 733
>gnl|CDD|218621 pfam05518, Totivirus_coat, Totivirus coat protein.
Length = 753
Score = 46.7 bits (111), Expect = 2e-05
Identities = 32/123 (26%), Positives = 41/123 (33%), Gaps = 10/123 (8%)
Query: 381 SSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAH----STTPHDSA 436
P P P+ GG + T P + A T H +A
Sbjct: 634 GFPPVFKTALPR--PDYNRGGEAGGPGVPGPVPVGMPAHTARPSRVARGDPVRPTAHHAA 691
Query: 437 IAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESS 496
+ AP + R GG P GGGG PP P PA +L S P PP E +
Sbjct: 692 L-RAPQAPRPGGPP---GGGGGLPPPPDLPAAAGPAPCGSSLIASPTAPPEPEPPGAEQA 747
Query: 497 EPG 499
+
Sbjct: 748 DGA 750
Score = 29.0 bits (65), Expect = 6.7
Identities = 15/81 (18%), Positives = 28/81 (34%), Gaps = 7/81 (8%)
Query: 364 GLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPP 423
G P HA P + P G P G G +P + +++ + ++ A+ P
Sbjct: 680 GDPVRPTAHHAALRAPQAPRPGGPPGGGGGLPPPPDLPAAAGPAPCGSSLIASPTAPPEP 739
Query: 424 VQQAHSTTPHDSAIAPAPGSE 444
P + A ++
Sbjct: 740 -------EPPGAEQADGAENQ 753
>gnl|CDD|184923 PRK14959, PRK14959, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 624
Score = 43.5 bits (102), Expect = 2e-04
Identities = 34/125 (27%), Positives = 44/125 (35%), Gaps = 14/125 (11%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
PS GG P+G GG + PG P+G + S A A +
Sbjct: 373 PSGGGASAPSGSAAEGPASGGAATIPTPG-----TQGPQGTAPAAGMTPSSAAPATPAPS 427
Query: 418 IGTLPPVQQAHS-TTPHDSAIAPAPGSERGG-----GAPPSGSGGGGAPPSGGGP---PP 468
P V + P S I P P GAP S + APP+ G P
Sbjct: 428 AAPSPRVPWDDAPPAPPRSGIPPRPAPRMPEASPVPGAPDSVASASDAPPTLGDPSDTAE 487
Query: 469 NTPAG 473
+TP+G
Sbjct: 488 HTPSG 492
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 42.5 bits (100), Expect = 4e-04
Identities = 32/146 (21%), Positives = 42/146 (28%), Gaps = 16/146 (10%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
P+ GGG PGG V + G P PG G S+ AA AA
Sbjct: 360 PAVTGGG----------APGGGVPARVAGAVPAPGARAAAAVGASAVPAVTAVTGAAGAA 409
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPG-----SERGGGAPPSGSGGGGAPPSGGGPPPNTPA 472
+ A +T APAP + A S A
Sbjct: 410 LAP-KAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASADSRCDERDA 468
Query: 473 GLPHNLPLSTADPSNHHPPKPESSEP 498
P + ++A S+ P P
Sbjct: 469 QPPADSGSASAPASDAPPDAAFEPAP 494
Score = 30.2 bits (68), Expect = 3.3
Identities = 25/142 (17%), Positives = 39/142 (27%), Gaps = 3/142 (2%)
Query: 360 AGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIG 419
A G A L A + P P P + + + A A A+
Sbjct: 401 AVTGAAGAALAPKAAAAAAATRAEAPPAAPAPPATADRGDDAADGDAPVPAKANARASAD 460
Query: 420 TLPPVQQAHSTTPHDSAIAPAPGSE---RGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
+ + A SA APA + AP + + P + A
Sbjct: 461 SRCDERDAQPPADSGSASAPASDAPPDAAFEPAPRAAAPSAATPAAVPDARAPAAASRED 520
Query: 477 NLPLSTADPSNHHPPKPESSEP 498
+ PP P ++ P
Sbjct: 521 APAAAAPPAPEARPPTPAAAAP 542
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 42.1 bits (99), Expect = 7e-04
Identities = 24/143 (16%), Positives = 35/143 (24%), Gaps = 4/143 (2%)
Query: 360 AGGGGLPAGLNYPHAPPGGPVSSGPP--GGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
GG P P +S + G ++
Sbjct: 16 EGGEFFPRPPATPGDAADDLLSGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGP 75
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPP--SGGGPPPNTPAGLP 475
P + + T S +APA + G PP S PP PPP+ L
Sbjct: 76 GTEAPANESRSTPTWSLSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLS 135
Query: 476 HNLPLSTADPSNHHPPKPESSEP 498
L + P +
Sbjct: 136 EMLRPVGSPGPPPAASPPAAGAS 158
Score = 38.2 bits (89), Expect = 0.012
Identities = 33/172 (19%), Positives = 54/172 (31%), Gaps = 11/172 (6%)
Query: 338 RAIVGRIPDCLRNCVNKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEG 397
A G D L + + + + A +GPP GP E
Sbjct: 25 PATPGDAADDLLSGSQGQLVSDSAELAAVTVVAGAAACDRFEPPTGPPPGPGTEAPANES 84
Query: 398 INGGSSSLVSRYYAAAAAAAIGTLPPVQQAHST---TPHDSAIAPAPGSERGG---GAPP 451
+ + SL + A+ A PP + TP ++ P+P +
Sbjct: 85 RSTPTWSLSTL-APASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGS 143
Query: 452 SGSGGGGAPPSGGGPPPNTPAGLPH----NLPLSTADPSNHHPPKPESSEPG 499
G +PP+ G P + LPLS+ + + P P + P
Sbjct: 144 PGPPPAASPPAAGASPAAVASDAASSRQAALPLSSPEETARAPSSPPAEPPP 195
Score = 36.7 bits (85), Expect = 0.029
Identities = 27/150 (18%), Positives = 41/150 (27%), Gaps = 10/150 (6%)
Query: 358 PSAGGGGLPAGLNYPHAPPGG------PVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYA 411
S+ LP A P S+ P P P I+ +SS
Sbjct: 167 ASSRQAALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGR 226
Query: 412 AAA----AAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPP 467
+AA A++ + P + P P SG G G
Sbjct: 227 SAADDAGASSSDSSSSESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPAS 286
Query: 468 PNTPAGLPHNLPLSTADPSNHHPPKPESSE 497
++ P ++ S P P +S
Sbjct: 287 SSSSPRERSPSPSPSSPGSGPAPSSPRASS 316
Score = 36.3 bits (84), Expect = 0.040
Identities = 23/127 (18%), Positives = 39/127 (30%), Gaps = 18/127 (14%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
+ P P + P P + GS S A++++++ S
Sbjct: 275 WNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSS-----------SRE 323
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPP 491
S+ + + S RG P G +P PPP P+ + P
Sbjct: 324 SSSSSTSSSSESSRGAAVSP-GPSPSRSPSPSRPPPPADPS------SPRKRPRPSRAPS 376
Query: 492 KPESSEP 498
P +S
Sbjct: 377 SPAASAG 383
Score = 36.3 bits (84), Expect = 0.044
Identities = 25/131 (19%), Positives = 39/131 (29%), Gaps = 4/131 (3%)
Query: 366 PAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQ 425
PA + P+S+ P PG G SSS S ++ P+
Sbjct: 199 PAAASPRPPRRSSPISASASSPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENECPLP 258
Query: 426 QAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADP 485
+ T + + P+ S P P++P P S+
Sbjct: 259 RPAPITLPTRIWEASGWNGPSSRPGPASS-SSSPRERSPSPSPSSPGSGPAP---SSPRA 314
Query: 486 SNHHPPKPESS 496
S+ ESS
Sbjct: 315 SSSSSSSRESS 325
Score = 33.6 bits (77), Expect = 0.28
Identities = 21/146 (14%), Positives = 34/146 (23%), Gaps = 4/146 (2%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
P+ G P P P S P V G +S + AA A+
Sbjct: 106 PTPPGPSSPDPPPPTPPPASPPPSPAPDLSEMLRPVGSPGPPPAASPPAAGASPAAVASD 165
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAP---PSGGGPPPNTPAGL 474
+ S+ + +P +E PP+ + P PA
Sbjct: 166 AASSRQAALPLSSPEETARAPSSPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPG 225
Query: 475 PH-NLPLSTADPSNHHPPKPESSEPG 499
+ +
Sbjct: 226 RSAADDAGASSSDSSSSESSGCGWGP 251
Score = 33.2 bits (76), Expect = 0.43
Identities = 35/133 (26%), Positives = 40/133 (30%), Gaps = 17/133 (12%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
H P GG SSGP PPG P SS S+ AAA ++
Sbjct: 823 SHTPDGGSESSGPAR-PPGAAARPPPA---RSSESSKSKPAAAGGRARGKNGRRRPRPPE 878
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPP--------SGGGPPPN-----TPAGLPHNL 478
P A AP P P GGP P P G H
Sbjct: 879 PRARPGAAAPPKAAAAAPPAGAPAPRPRPAPRVKLGPMPPGGPDPRGGFRRVPPGDLHTP 938
Query: 479 PLSTADPSNHHPP 491
S A + + PP
Sbjct: 939 APSAAALAAYCPP 951
Score = 32.5 bits (74), Expect = 0.75
Identities = 18/116 (15%), Positives = 29/116 (25%), Gaps = 1/116 (0%)
Query: 385 PGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAP-GS 443
P P P +P I S A+++ ++P +P S
Sbjct: 256 PLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRAS 315
Query: 444 ERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEPG 499
+ S S + +P P P + P P P
Sbjct: 316 SSSSSSRESSSSSTSSSSESSRGAAVSPGPSPSRSPSPSRPPPPADPSSPRKRPRP 371
Score = 29.0 bits (65), Expect = 8.5
Identities = 13/100 (13%), Positives = 23/100 (23%), Gaps = 7/100 (7%)
Query: 374 APPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPH 433
+P P S G P P + SS ++ ++
Sbjct: 295 SPSPSPSSPGSGPAPSSPRASSSSSSSRESSS-------SSTSSSSESSRGAAVSPGPSP 347
Query: 434 DSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
+ +P+ + P PS P
Sbjct: 348 SRSPSPSRPPPPADPSSPRKRPRPSRAPSSPAASAGRPTR 387
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 40.4 bits (95), Expect = 0.001
Identities = 24/145 (16%), Positives = 38/145 (26%), Gaps = 6/145 (4%)
Query: 343 RIPDCLRNCVNKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGS 402
RI L+ ++ P + P + G
Sbjct: 137 RIHKALKE--GEDPNPGPPLDEEDEDADVATTNSDNSFPGEDADPASASPSDPPSSSPGV 194
Query: 403 SSLVSRYYAAAAAAAIGTLPPVQQAHST--TPHDSAIAPAPGSERGGGAPPSGSGGGGAP 460
S S ++ + +LPP + + P P G APP P
Sbjct: 195 PSFPSPPEDPSSPSD-SSLPPAPSSFQSDTPPPSPESPTNPSPPPGPAAPPPPPVQQVPP 253
Query: 461 PSGGGP-PPNTPAGLPHNLPLSTAD 484
S P PP+ A ++ D
Sbjct: 254 LSTAKPTPPSASATPAPIGGITLDD 278
Score = 35.0 bits (81), Expect = 0.070
Identities = 24/116 (20%), Positives = 35/116 (30%), Gaps = 5/116 (4%)
Query: 384 PPGGPPGPGVVPEGINGGSSSLVS-RYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPG 442
P GPP + ++S S A A+A + PP P + P
Sbjct: 148 PNPGPPLDEEDEDADVATTNSDNSFPGEDADPASASPSDPPSSSPGV--PSFPSPPEDPS 205
Query: 443 SERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
S PP+ S P P P+ P P P +++P
Sbjct: 206 SPSDSSLPPAPSSFQSDTPPPSPESPTNPSPPPGPAAPPP--PPVQQVPPLSTAKP 259
Score = 34.3 bits (79), Expect = 0.14
Identities = 16/82 (19%), Positives = 23/82 (28%), Gaps = 8/82 (9%)
Query: 421 LPPVQQAHSTTPHDSAIAPAPGSE---RGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHN 477
+ +S D+ A A S+ G P S P P+ +
Sbjct: 163 VATTNSDNSFPGEDADPASASPSDPPSSSPGVPSFPSPPEDPSSPSDSSLPPAPSSFQSD 222
Query: 478 LPLSTADPSNHHPPKPESSEPG 499
P P + P S PG
Sbjct: 223 TP-----PPSPESPTNPSPPPG 239
>gnl|CDD|223065 PHA03378, PHA03378, EBNA-3B; Provisional.
Length = 991
Score = 40.8 bits (95), Expect = 0.002
Identities = 29/115 (25%), Positives = 34/115 (29%), Gaps = 9/115 (7%)
Query: 375 PPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHD 434
PP P PP PPG P G + + A AA A
Sbjct: 697 PPRAPTPMRPPAAPPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARP 756
Query: 435 SAIAPAPGSERGGGAPPSGSGGGGAP---PSGGGPPPNTPAGLPHNLPLSTADPS 486
A AP PP+ + G P P P P G P P A P+
Sbjct: 757 PAAAPGRAR------PPAAAPGAPTPQPPPQAPPAPQQRPRGAPTPQPPPQAGPT 805
Score = 33.5 bits (76), Expect = 0.32
Identities = 26/140 (18%), Positives = 43/140 (30%), Gaps = 7/140 (5%)
Query: 366 PAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAA----AAAIGTL 421
PH PP ++ P + + G+++++ +A A +
Sbjct: 645 VLVFPTPHQPPQVEITPYKPTWTQIGHIPYQPSPTGANTMLPIQWAPGTMQPPPRAPTPM 704
Query: 422 PPVQQAHSTTPHDSAI---APAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNL 478
P +A A P + G PP+ + G PP+ PA P
Sbjct: 705 RPPAAPPGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGRA 764
Query: 479 PLSTADPSNHHPPKPESSEP 498
A P P P + P
Sbjct: 765 RPPAAAPGAPTPQPPPQAPP 784
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 40.3 bits (95), Expect = 0.002
Identities = 21/109 (19%), Positives = 32/109 (29%), Gaps = 13/109 (11%)
Query: 359 SAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAI 418
G A G SS G G G++ + + A A A
Sbjct: 304 GGAAAAARGG-----AAAAGGASSAYSAGAAGGS--------GAAGVAAGLGGVARAGAS 350
Query: 419 GTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPP 467
P+++A S + G+ GG + A + GPP
Sbjct: 351 AAASPLRRAASRAAESMKSSFRAGARSTGGGAGGAAAAAAAGAAAAGPP 399
>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 700
Score = 39.9 bits (93), Expect = 0.003
Identities = 31/143 (21%), Positives = 42/143 (29%), Gaps = 13/143 (9%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
P GGG P PV+ P P ++ AAA AAA
Sbjct: 365 PGQSGGGAG-----PATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAP------AAAPAAA 413
Query: 418 IGTLPPVQQAHSTTPHDSAIAPA--PGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLP 475
+P A+A A + GGAP AP + P P +
Sbjct: 414 AAARAVAAAPARRSPAPEALAAARQASARGPGGAPAPAPAPAAAPAAAARPAAAGPRPVA 473
Query: 476 HNLPLSTADPSNHHPPKPESSEP 498
+ A + P P +P
Sbjct: 474 AAAAAAPARAAPAAAPAPADDDP 496
Score = 33.7 bits (77), Expect = 0.24
Identities = 27/142 (19%), Positives = 38/142 (26%), Gaps = 9/142 (6%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
+ G GG PA AP P ++ P V +++ AAA A A
Sbjct: 440 SARGPGGAPAP---APAPAAAPAAAARPAAAGPRPVAA----AAAAAPARAAPAAAPAPA 492
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHN 477
PP ++ + P G S A P
Sbjct: 493 DDDPPPWEELPPEFASPAPAQPDAAP--AGWVAESIPDPATADPDDAFETLAPAPAAAPA 550
Query: 478 LPLSTADPSNHHPPKPESSEPG 499
+ A P P +S G
Sbjct: 551 PRAAAATEPVVAPRPPRASASG 572
Score = 31.4 bits (71), Expect = 1.3
Identities = 26/126 (20%), Positives = 33/126 (26%), Gaps = 5/126 (3%)
Query: 374 APPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPH 433
P P ++ P P + + AAA A P A + P
Sbjct: 397 PAPAAPPAA-PAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPAPAPAP- 454
Query: 434 DSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKP 493
A APA R A P A P PA + P P P P
Sbjct: 455 --AAAPAAA-ARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAP 511
Query: 494 ESSEPG 499
+
Sbjct: 512 AQPDAA 517
Score = 29.1 bits (65), Expect = 6.6
Identities = 27/140 (19%), Positives = 37/140 (26%), Gaps = 9/140 (6%)
Query: 366 PAGLNYPHAPPGGPVSSGPPGGPPGPGVVP------EGINGGSSSLVSRYYAA-AAAAAI 418
A V++ P P P + GG+ + AA AAAA
Sbjct: 405 APAAAPAAAAAARAVAAAPARRSPAPEALAAARQASARGPGGAPAPAPAPAAAPAAAARP 464
Query: 419 GTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNL 478
P A + + APA PP S P A +
Sbjct: 465 AAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPA--PAQPDAAPAGWV 522
Query: 479 PLSTADPSNHHPPKPESSEP 498
S DP+ P +
Sbjct: 523 AESIPDPATADPDDAFETLA 542
>gnl|CDD|219419 pfam07462, MSP1_C, Merozoite surface protein 1 (MSP1) C-terminus.
This family represents the C-terminal region of
merozoite surface protein 1 (MSP1) which are found in a
number of Plasmodium species. MSP-1 is a 200-kDa protein
expressed on the surface of the P. vivax merozoite.
MSP-1 of Plasmodium species is synthesised as a
high-molecular-weight precursor and then processed into
several fragments. At the time of red cell invasion by
the merozoite, only the 19-kDa C-terminal fragment
(MSP-119), which contains two epidermal growth
factor-like domains, remains on the surface. Antibodies
against MSP-119 inhibit merozoite entry into red cells,
and immunisation with MSP-119 protects monkeys from
challenging infections. Hence, MSP-119 is considered a
promising vaccine candidate.
Length = 574
Score = 38.4 bits (89), Expect = 0.008
Identities = 16/48 (33%), Positives = 20/48 (41%)
Query: 419 GTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGP 466
GT + TP + AP+P S R G+ S SG P SG
Sbjct: 261 GTTQEAKVTTVVTPPQADAAPSPLSVRPAGSSGSASGSTQIPTSGSVL 308
>gnl|CDD|219133 pfam06682, DUF1183, Protein of unknown function (DUF1183). This
family consists of several eukaryotic proteins of around
360 residues in length. The function of this family is
unknown.
Length = 317
Score = 38.2 bits (89), Expect = 0.008
Identities = 27/106 (25%), Positives = 42/106 (39%), Gaps = 9/106 (8%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSR-------YYAAA 413
GGGG G + P PP G SS PP P GPG P G + + +
Sbjct: 201 GGGGGGGGGSGPGPPPPGFKSSFPP--PYGPGAGPSSGYGSGGTRSGQGGWGPGFWTGLG 258
Query: 414 AAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGA 459
A A+G L ++ ++++ S + +P + S S +
Sbjct: 259 AGGALGYLFGSRRNNNSSYGRSYGSGSPSYSPSSSSNSSSSSSSSS 304
Score = 30.1 bits (68), Expect = 2.6
Identities = 14/63 (22%), Positives = 16/63 (25%), Gaps = 3/63 (4%)
Query: 439 PAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
G GGGG GGG P + P + P SS
Sbjct: 181 GGVRGGPRPERAGYGGGGGGGGGGGGGGGSGPGPPPPGFKS---SFPPPYGPGAGPSSGY 237
Query: 499 GVH 501
G
Sbjct: 238 GSG 240
>gnl|CDD|236582 PRK09599, PRK09599, 6-phosphogluconate dehydrogenase-like protein;
Reviewed.
Length = 301
Score = 37.4 bits (88), Expect = 0.012
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 178 LGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIE--KSLGLTRVYTLQDLL 228
LG++GLGR+G +A R G V+ YD P+ +E G T +L++L+
Sbjct: 3 LGMIGLGRMGGNMARRLLRGGHEVVGYDRN-PEAVEALAEEGATGADSLEELV 54
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 37.4 bits (86), Expect = 0.019
Identities = 27/126 (21%), Positives = 35/126 (27%), Gaps = 2/126 (1%)
Query: 370 NYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHS 429
N P P P+SS P PP P + S L S +LPP H
Sbjct: 380 NLPPPPALKPLSSLPTHHPPSAHPPPLQLMPQSQPLQSVPAQPPVLTQSQSLPPKASTHP 439
Query: 430 TT--PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSN 487
+ +P G P+ P S PP +G +
Sbjct: 440 HSGLHSGPPQSPFAQHPFTSGGLPAIGPPPSLPTSTPAAPPRASSGSQPPGSALPSSGGC 499
Query: 488 HHPPKP 493
P P
Sbjct: 500 AGPGPP 505
Score = 36.6 bits (84), Expect = 0.034
Identities = 29/125 (23%), Positives = 38/125 (30%), Gaps = 6/125 (4%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
PH P P PP P + P SSL + + +A + +P Q S
Sbjct: 366 PHLQGPSPFPQMPSNLPPPPALKP------LSSLPTHHPPSAHPPPLQLMPQSQPLQSVP 419
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPP 491
+ + P G P S P T GLP P + S P
Sbjct: 420 AQPPVLTQSQSLPPKASTHPHSGLHSGPPQSPFAQHPFTSGGLPAIGPPPSLPTSTPAAP 479
Query: 492 KPESS 496
SS
Sbjct: 480 PRASS 484
Score = 36.2 bits (83), Expect = 0.043
Identities = 34/136 (25%), Positives = 45/136 (33%), Gaps = 24/136 (17%)
Query: 366 PAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQ 425
P L +P + P P PP P +P S + + + +A PP +
Sbjct: 283 PVFLQHPSSNPPQPFGLAQSQVPPLP--LP------SQAQPHSHTPPSQSALQPQQPPRE 334
Query: 426 QAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLP------ 479
Q P I P P + S PP GP P +P NLP
Sbjct: 335 QPLPPAPSMPHIKPPPTTPIPQLPNQSHK----HPPHLQGPSPF--PQMPSNLPPPPALK 388
Query: 480 ----LSTADPSNHHPP 491
L T P + HPP
Sbjct: 389 PLSSLPTHHPPSAHPP 404
Score = 33.1 bits (75), Expect = 0.39
Identities = 44/218 (20%), Positives = 66/218 (30%), Gaps = 14/218 (6%)
Query: 295 SEPYNVFQGNLKDAPNILCTPHAAFYSEASCTELR---EMAASEIRRAIVGRIPDCLRNC 351
S+P ++ Q N +P+I S++S + + S P
Sbjct: 138 SDPKDIDQDNRSSSPSIPSPQDNESDSDSSAQQQLLQPQGPPSIQVPPGAALAPSAPPPT 197
Query: 352 VNKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGP-----PGPGVVPEGINGGSSSLV 406
+ + P G P P + S P P P P + P+ + S
Sbjct: 198 PSAQAVPPQGSPIAAQPAPQPQQPSPLSLISAPSLHPQRLPSPHPPLQPQTASQQSPQPP 257
Query: 407 SRYYAAAAAAAIGTLPPVQQAHSTTP----HDSAIAPAPGSERGGGAPPSGSGGGGAPPS 462
+ ++ G PP+ A P H S+ P P PP P S
Sbjct: 258 APSSRHPQSSHHGPGPPMPHALQQGPVFLQHPSSNPPQPFGLAQSQVPPLPLPSQAQPHS 317
Query: 463 GGGPPPN--TPAGLPHNLPLSTADPSNHHPPKPESSEP 498
P + P P PL A H P P + P
Sbjct: 318 HTPPSQSALQPQQPPREQPLPPAPSMPHIKPPPTTPIP 355
Score = 30.0 bits (67), Expect = 3.7
Identities = 33/130 (25%), Positives = 43/130 (33%), Gaps = 8/130 (6%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAA---AIGTLPPVQQAH 428
P + P V + PP + P+ S L S + A G LP +
Sbjct: 410 PQSQPLQSVPAQPPVLTQSQSLPPKASTHPHSGLHSGPPQSPFAQHPFTSGGLPAIGPPP 469
Query: 429 STTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNH 488
S A P S G+ P GS + G PP P + PL A+
Sbjct: 470 SLPTSTPAAPPRASS----GSQPPGSALPSSGGCAGPGPPLPPIQIKEE-PLDEAEEPES 524
Query: 489 HPPKPESSEP 498
PP P S P
Sbjct: 525 PPPPPRSPSP 534
>gnl|CDD|218439 pfam05109, Herpes_BLLF1, Herpes virus major outer envelope
glycoprotein (BLLF1). This family consists of the BLLF1
viral late glycoprotein, also termed gp350/220. It is
the most abundantly expressed glycoprotein in the viral
envelope of the Herpesviruses and is the major antigen
responsible for stimulating the production of
neutralising antibodies in vivo.
Length = 830
Score = 37.1 bits (85), Expect = 0.022
Identities = 26/135 (19%), Positives = 36/135 (26%), Gaps = 15/135 (11%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
P P VS+ PG PGPG + G+SS SRY +P +
Sbjct: 635 PSVPSTTHVSTLSPG--PGPGTTSQVSGPGNSS-TSRYPGEVHVTEG--MPNPNATSPSA 689
Query: 432 PHDSAIA-------PAPGSERGGGAPPSGSGGGGAPPSGGG---PPPNTPAGLPHNLPLS 481
P A + S +P + G P S
Sbjct: 690 PSGQKTAVPTVTSTGGKANSTTKETSGSTLMASTSPHTNEGAFRTTPYNATTYLPPSTSS 749
Query: 482 TADPSNHHPPKPESS 496
P P ++
Sbjct: 750 KLRPRWTFTSPPVTT 764
>gnl|CDD|223029 PHA03264, PHA03264, envelope glycoprotein D; Provisional.
Length = 416
Score = 36.1 bits (83), Expect = 0.042
Identities = 23/108 (21%), Positives = 29/108 (26%), Gaps = 14/108 (12%)
Query: 406 VSRYYAAA-------AAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAP--PSGSGG 456
V Y+ + A + PP P + GG P +G
Sbjct: 254 VPPYFEESKGYEPPPAPSGGSPAPPGDDRPEAKPEPGPVEDGAPGRETGGEGEGPEPAGR 313
Query: 457 GGAP---PSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEPGVH 501
GA P G P P A P P A PP P +
Sbjct: 314 DGAAGGEPKPGPPRPAPDADRPEGWPSLEAIT--FPPPTPATPAVPRA 359
Score = 28.4 bits (63), Expect = 9.4
Identities = 11/37 (29%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEG 397
G G P A G P P P PEG
Sbjct: 303 GEGEGPEPAGRDGAAGGEPKPG--PPRPAPDADRPEG 337
>gnl|CDD|197548 smart00157, PRP, Major prion protein. The prion protein is a major
component of scrapie-associated fibrils in
Creutzfeldt-Jakob disease, kuru, Gerstmann-Straussler
syndrome and bovine spongiform encephalopathy.
Length = 218
Score = 34.8 bits (80), Expect = 0.058
Identities = 15/38 (39%), Positives = 15/38 (39%)
Query: 439 PAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
P GS G PP G G G G G P G PH
Sbjct: 18 PGQGSPGGNRYPPQGGGWGQPHGGGWGQPHGGGWGQPH 55
Score = 34.1 bits (78), Expect = 0.11
Identities = 15/42 (35%), Positives = 16/42 (38%), Gaps = 5/42 (11%)
Query: 440 APGSER-----GGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
+PG R GG P G G G G G P G PH
Sbjct: 22 SPGGNRYPPQGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPH 63
>gnl|CDD|219339 pfam07223, DUF1421, Protein of unknown function (DUF1421). This
family represents a conserved region approximately 350
residues long within a number of plant proteins of
unknown function.
Length = 357
Score = 35.3 bits (81), Expect = 0.060
Identities = 29/143 (20%), Positives = 36/143 (25%), Gaps = 16/143 (11%)
Query: 366 PAGLNYPHAPPGGPVSSGP---------PGGPPGPGVVPEGINGGSSSLVSRYYAAAAAA 416
YP P P S P P + G Y
Sbjct: 175 QVSGLYPEESPYQPQSYPPNEPLPSSMAMQPPYSGAPPSQQFYGPPQPSPYMYGGPGGRP 234
Query: 417 AIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAP----PSGSGGGGAPPSGGGPPPNTPA 472
G Q S + P S+ G+ P GS S P
Sbjct: 235 NSGFPSGQQPPPSQGQEGYGYSGPPPSKGNHGSVASYAPQGSSQSY---STAYPSLPAAT 291
Query: 473 GLPHNLPLSTADPSNHHPPKPES 495
LP LP+S+A S P+S
Sbjct: 292 VLPQALPMSSAPMSGGGSGSPQS 314
Score = 32.6 bits (74), Expect = 0.41
Identities = 24/101 (23%), Positives = 37/101 (36%), Gaps = 9/101 (8%)
Query: 356 YFPSAGGGGLPAGLNYPH-APPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAA 414
Y GG +G PP GPP +G +G +S + + +
Sbjct: 225 YMYGGPGGRPNSGFPSGQQPPPSQGQEGYGYSGPPPS----KGNHGSVASYAPQGSSQSY 280
Query: 415 AAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSG 455
+ A +LP P ++ AP S G G+P SG+
Sbjct: 281 STAYPSLPAATVL----PQALPMSSAPMSGGGSGSPQSGNR 317
>gnl|CDD|236382 PRK09111, PRK09111, DNA polymerase III subunits gamma and tau;
Validated.
Length = 598
Score = 35.6 bits (83), Expect = 0.064
Identities = 16/74 (21%), Positives = 22/74 (29%), Gaps = 2/74 (2%)
Query: 427 AHSTTPHDSA--IAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTAD 484
A TP ++ + P S GGG P G GG P+ P A P +
Sbjct: 375 ADLPTPDEALRRLQEGPPSPGGGGGGPPGGGGAPGAPAAAAAPGAAAAAPAAGGPAAALA 434
Query: 485 PSNHHPPKPESSEP 498
+
Sbjct: 435 AVPDAAAAAAAPPA 448
Score = 32.6 bits (75), Expect = 0.59
Identities = 16/68 (23%), Positives = 20/68 (29%)
Query: 374 APPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPH 433
P G GPPGG PG G+++ AAA A A P
Sbjct: 391 PPSPGGGGGGPPGGGGAPGAPAAAAAPGAAAAAPAAGGPAAALAAVPDAAAAAAAPPAPA 450
Query: 434 DSAIAPAP 441
+
Sbjct: 451 AAPQPAVR 458
Score = 29.5 bits (67), Expect = 5.1
Identities = 21/69 (30%), Positives = 26/69 (37%), Gaps = 2/69 (2%)
Query: 383 GPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPG 442
GPP G G P G GG+ + A AAAA A + P +A A AP
Sbjct: 390 GPPSPGGGGGGPPGG--GGAPGAPAAAAAPGAAAAAPAAGGPAAALAAVPDAAAAAAAPP 447
Query: 443 SERGGGAPP 451
+ P
Sbjct: 448 APAAAPQPA 456
Score = 29.1 bits (66), Expect = 5.8
Identities = 18/70 (25%), Positives = 21/70 (30%), Gaps = 6/70 (8%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
P GG G G P P + + AA AA P A +
Sbjct: 392 PSPGGGGGGPPGGGGAPGAPA------AAAAPGAAAAAPAAGGPAAALAAVPDAAAAAAA 445
Query: 432 PHDSAIAPAP 441
P A AP P
Sbjct: 446 PPAPAAAPQP 455
Score = 29.1 bits (66), Expect = 6.4
Identities = 26/101 (25%), Positives = 34/101 (33%), Gaps = 6/101 (5%)
Query: 329 REMAASE---IRRAIVGRIP---DCLRNCVNKEYFPSAGGGGLPAGLNYPHAPPGGPVSS 382
R +AA+E IR A +P + LR P GGGG P G P AP
Sbjct: 359 RPLAAAEMVLIRLAYAADLPTPDEALRRLQEGPPSPGGGGGGPPGGGGAPGAPAAAAAPG 418
Query: 383 GPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPP 423
P G ++ + A AAA +
Sbjct: 419 AAAAAPAAGGPAAALAAVPDAAAAAAAPPAPAAAPQPAVRL 459
Score = 28.7 bits (65), Expect = 9.6
Identities = 15/61 (24%), Positives = 20/61 (32%), Gaps = 5/61 (8%)
Query: 439 PAPGSERGGGAPPSGSGGGGAPPS-----GGGPPPNTPAGLPHNLPLSTADPSNHHPPKP 493
G GGG P AP + G P A +P + A P+ P+P
Sbjct: 396 GGGGGPPGGGGAPGAPAAAAAPGAAAAAPAAGGPAAALAAVPDAAAAAAAPPAPAAAPQP 455
Query: 494 E 494
Sbjct: 456 A 456
>gnl|CDD|219404 pfam07415, Herpes_LMP2, Gammaherpesvirus latent membrane protein
(LMP2) protein. This family consists of several
Gammaherpesvirus latent membrane protein (LMP2)
proteins. Epstein-Barr virus is a human Gammaherpesvirus
that infects and establishes latency in B lymphocytes in
vivo. The latent membrane protein 2 (LMP2) gene is
expressed in latently infected B cells and encodes two
protein isoforms, LMP2A and LMP2B, that are identical
except for an additional N-terminal 119 aa cytoplasmic
domain which is present in the LMP2A isoform. LMP2A is
thought to play a key role in either the establishment
or the maintenance of latency and/or the reactivation of
productive infection from the latent state. The
significance of LMP2B and its role in pathogenesis
remain unclear.
Length = 489
Score = 35.2 bits (81), Expect = 0.069
Identities = 24/93 (25%), Positives = 34/93 (36%), Gaps = 12/93 (12%)
Query: 387 GPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGT-LPPVQQAHSTTPHDSAIAPAPGSER 445
G P P+G G S+ YY ++ ++ PPV + + H +R
Sbjct: 12 GGPRSHGGPDGDEGDSNP----YYPSSFGSSWDRPGPPVPEDYDAPSHRPPPYGGSNGDR 67
Query: 446 GGGAPPSGS-------GGGGAPPSGGGPPPNTP 471
GG P G G G G PPP +P
Sbjct: 68 HGGYQPLGQQDPSLYAGLGQNGGGGLPPPPYSP 100
Score = 35.2 bits (81), Expect = 0.084
Identities = 17/65 (26%), Positives = 19/65 (29%), Gaps = 8/65 (12%)
Query: 438 APAPGSERGGGAPPSGSGGGGA-PPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESS 496
A P S G P G PS G + P P D +H PP S
Sbjct: 11 AGGPRS---HGGPDGDEGDSNPYYPSSFGSSWDRPG--PPVPE--DYDAPSHRPPPYGGS 63
Query: 497 EPGVH 501
H
Sbjct: 64 NGDRH 68
>gnl|CDD|240621 cd01620, Ala_dh_like, Alanine dehydrogenase and related
dehydrogenases. Alanine dehydrogenase/Transhydrogenase,
such as the hexameric L-alanine dehydrogenase of
Phormidium lapideum, contain 2 Rossmann fold-like
domains linked by an alpha helical region. Related
proteins include Saccharopine Dehydrogenase (SDH),
bifunctional lysine ketoglutarate reductase
/saccharopine dehydrogenase enzyme,
N(5)-(carboxyethyl)ornithine synthase, and Rubrum
transdehydrogenase. Alanine dehydrogenase (L-AlaDH)
catalyzes the NAD-dependent conversion of pyrucate to
L-alanine via reductive amination. Transhydrogenases
found in bacterial and inner mitochondrial membranes
link NAD(P)(H)-dependent redox reactions to proton
translocation. The energy of the proton electrochemical
gradient (delta-p), generated by the respiratory
electron transport chain, is consumed by
transhydrogenase in NAD(P)+ reduction. Transhydrogenase
is likely involved in the regulation of the citric acid
cycle. Rubrum transhydrogenase has 3 components, dI,
dII, and dIII. dII spans the membrane while dI and dIII
protrude on the cytoplasmic/matirx side. DI contains 2
domains with Rossmann folds, linked by a long alpha
helix, and contains a NAD binding site. Two dI
polypeptides (represented in this sub-family)
spontaneously form a heterotrimer with one dIII in the
absence of dII. In the heterotrimer, both dI chains may
bind NAD, but only one is well-ordered. dIII also binds
a well-ordered NADP, but in a different orientation than
classical Rossmann domains.
Length = 317
Score = 34.7 bits (80), Expect = 0.100
Identities = 29/95 (30%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 180 IVGLGRIGSAVALRAKAFGFNVIFYD--PYLPDGIEKSLGLTRVYT----LQDLLFQSDC 233
I+G G +G A AK G NV+ YD G+E G Y+ L+ L Q+D
Sbjct: 167 IIGAGVVGLGAAKIAKKLGANVLVYDIKEEKLKGVETLGGSRLRYSQKEELEKELKQTDI 226
Query: 234 VSLHCTL--NEHNHHLINEFTIKQMRPGAFLVNTA 266
+ ++ L LI E + M+ GA +V+ A
Sbjct: 227 L-INAILVDGPRAPILIMEELVGPMKRGAVIVDLA 260
>gnl|CDD|220392 pfam09770, PAT1, Topoisomerase II-associated protein PAT1. Members
of this family are necessary for accurate chromosome
transmission during cell division.
Length = 804
Score = 34.4 bits (79), Expect = 0.15
Identities = 27/147 (18%), Positives = 33/147 (22%), Gaps = 11/147 (7%)
Query: 356 YFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAA 415
FP G P G YP P G P P P P P
Sbjct: 190 AFPQQGPPEQPPG--YPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQL-----PQQPPP 242
Query: 416 AAIGTLPPVQQ----AHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTP 471
P + Q P P P ++ P+ G + PPP P
Sbjct: 243 LQQPQFPGLSQQMPPPPPQPPQQQQQPPQPQAQPPPQNQPTPHPGLPQGQNAPLPPPQQP 302
Query: 472 AGLPHNLPLSTADPSNHHPPKPESSEP 498
LP +
Sbjct: 303 QLLPLVQQPQGQQRGPQFREQLVQLSQ 329
Score = 29.7 bits (67), Expect = 3.9
Identities = 24/129 (18%), Positives = 30/129 (23%), Gaps = 13/129 (10%)
Query: 378 GPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLP-PVQQAHSTTPHDSA 436
G P P P P+ + ++S A P Q P
Sbjct: 127 GTAPKPEPQPPQAPESQPQPQ-TPAQKMLSLEEVEAQLQQRQQAPQLPQPPQQVLPQ--G 183
Query: 437 IAPAPGSERGGGAPPSGSGGGGAPPSGGG---------PPPNTPAGLPHNLPLSTADPSN 487
+ P + G P G P P PA P L P
Sbjct: 184 MPPRQAAFPQQGPPEQPPGYPQPPQGHPEQVQPQQFLPAPSQAPAQPPLPPQLPQQPPPL 243
Query: 488 HHPPKPESS 496
P P S
Sbjct: 244 QQPQFPGLS 252
>gnl|CDD|223954 COG1023, Gnd, Predicted 6-phosphogluconate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 300
Score = 33.9 bits (78), Expect = 0.16
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIE--KSLGLTRVYTLQDLL 228
+G++GLGR+G+ + R G +V+ YD +E K G T +L +L+
Sbjct: 2 QIGMIGLGRMGANLVRRLLDGGHDVVGYD-VNQTAVEELKDEGATGAASLDELV 54
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex
non-fungal. The approx. 70 residue Med15 domain of the
ARC-Mediator co-activator is a three-helix bundle with
marked similarity to the KIX domain. The sterol
regulatory element binding protein (SREBP) family of
transcription activators use the ARC105 subunit to
activate target genes in the regulation of cholesterol
and fatty acid homeostasis. In addition, Med15 is a
critical transducer of gene activation signals that
control early metazoan development.
Length = 768
Score = 34.2 bits (78), Expect = 0.16
Identities = 31/146 (21%), Positives = 40/146 (27%), Gaps = 18/146 (12%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGT 420
GG G P P GP P P G V +G+ + + T
Sbjct: 302 GGQGGPGQ-------PMGPPPQRPGAVPQGGQAVQQGVMSAGQQQLKQMKLRNMRGQQQT 354
Query: 421 LPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGS-------GGGGAPPSGGGPPPNTPAG 473
QQ P +GG G GG GA P G P
Sbjct: 355 QQQQQQQGGNHPAAHQQQMNQQVGQGGQMVALGYLNIQGNQGGLGANPMQQGQPGM---- 410
Query: 474 LPHNLPLSTADPSNHHPPKPESSEPG 499
+ P+ + P P+ S P
Sbjct: 411 MSSPSPVPQVQTNQSMPQPPQPSVPS 436
Score = 30.7 bits (69), Expect = 2.3
Identities = 19/110 (17%), Positives = 26/110 (23%), Gaps = 19/110 (17%)
Query: 375 PPGGPVSSGPPGGPPG-----------------PGVVPEGINGGSSSLVSRYYAAAAAAA 417
P GP+ GP G +P G G +SR
Sbjct: 87 PQMGPMGPGPGRPMGQQMGGPGTASNLLQSLNVRGQMPMGAAGMGPHQMSR--VGTMQPG 144
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPP 467
+QQ+ P + G + G P PP
Sbjct: 145 GQAGGMMQQSSGQPQSQQPNQMGPQQGQAQGQAGGMNQGQQGPVGQQQPP 194
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 34.3 bits (79), Expect = 0.18
Identities = 22/122 (18%), Positives = 28/122 (22%), Gaps = 4/122 (3%)
Query: 358 PSAGGGGLP----AGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAA 413
P+A P A P P P ++ + A
Sbjct: 366 PAAAAEAAAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAP 425
Query: 414 AAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
AA P A + A AP + A P A S P PA
Sbjct: 426 VAAPAAAAPAAAPAAAPAAVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAA 485
Query: 474 LP 475
Sbjct: 486 AR 487
Score = 31.6 bits (72), Expect = 1.0
Identities = 26/115 (22%), Positives = 33/115 (28%), Gaps = 21/115 (18%)
Query: 384 PPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGS 443
P +R AAA AAA P Q A + P A +
Sbjct: 366 PAAAAEAAAPAE-------KKTPARPEAAAPAAA----PVAQAAAAPAPA----AAPAAA 410
Query: 444 ERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
APP+ + P P PA P P + A PP + E
Sbjct: 411 ASAPAAPPAAA----PPAPVAAPAAAAPAAAPAAAPAAVALAP--APPAQAAPET 459
>gnl|CDD|236362 PRK09010, PRK09010, single-stranded DNA-binding protein;
Provisional.
Length = 177
Score = 32.5 bits (74), Expect = 0.26
Identities = 19/57 (33%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 442 GSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
G +GGGAP G G GG P P G + + P P P S+EP
Sbjct: 114 GGRQGGGAP--AGGNIGGQQQGGWGQPQQPQGGNQFSGGAQSRPQQSAPAAP-SNEP 167
>gnl|CDD|218397 pfam05044, Prox1, Homeobox prospero-like protein (PROX1). The
homeobox gene Prox1 is expressed in a subpopulation of
endothelial cells that, after budding from veins, gives
rise to the mammalian lymphatic system. Prox1 has been
found to be an early specific marker for the developing
liver and pancreas in the mammalian foregut endoderm.
This family contains an atypical homeobox domain.
Length = 908
Score = 33.5 bits (76), Expect = 0.27
Identities = 20/94 (21%), Positives = 23/94 (24%), Gaps = 14/94 (14%)
Query: 412 AAAAAAIGTLPPVQQAHSTTPHD-----------SAIAPAPGSERGGG--APPSGSGGGG 458
AA L P + S H + P P + P S G
Sbjct: 610 PAAGTHHQPLHPSSLSASMGFHPPPFRHPFPLPLTVAIPNPSLHQSEVFMGYPFQSPHLG 669
Query: 459 APPSGGGPPPNTPAGLPHNLP-LSTADPSNHHPP 491
AP LP L S HH P
Sbjct: 670 APSGSPPGKDRDSPDLPRPTTSLHPKLLSAHHHP 703
>gnl|CDD|177618 PHA03381, PHA03381, tegument protein VP22; Provisional.
Length = 290
Score = 33.1 bits (75), Expect = 0.33
Identities = 29/122 (23%), Positives = 35/122 (28%), Gaps = 26/122 (21%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
PHA P GP G GP + P +
Sbjct: 93 PHAQPEAS-GPGPARGARGPA------------------GSRGRGRRAESPSPR-----D 128
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPP 491
P + A AP + A + AP + TPAGL L STA S P
Sbjct: 129 PPNPKGASAPRGRKSACADSAALLDAPAPAAPKRQ--KTPAGLARKLHFSTAPTSPTAPW 186
Query: 492 KP 493
P
Sbjct: 187 TP 188
>gnl|CDD|237695 PRK14376, PRK14376, hypothetical protein; Provisional.
Length = 176
Score = 32.2 bits (73), Expect = 0.37
Identities = 19/70 (27%), Positives = 24/70 (34%), Gaps = 5/70 (7%)
Query: 379 PVSSGPPGGPPGPGVV--PEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSA 436
PV PG GPG V P G + V A A + P + + H
Sbjct: 107 PVPGEAPGTSVGPGTVRKPRGRTRTAGGPVG---AVDAGTPHRSRRPTGGHGTASLHRGT 163
Query: 437 IAPAPGSERG 446
+ GS RG
Sbjct: 164 RSEIVGSRRG 173
>gnl|CDD|235707 PRK06130, PRK06130, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 311
Score = 32.4 bits (74), Expect = 0.43
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLG 217
L I+G G +GS +A G V+ D + +E++ G
Sbjct: 6 NLAIIGAGTMGSGIAALFARKGLQVVLIDV-MEGALERARG 45
>gnl|CDD|215300 PLN02545, PLN02545, 3-hydroxybutyryl-CoA dehydrogenase.
Length = 295
Score = 32.4 bits (74), Expect = 0.46
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 176 DTLGIVGLGRIGSAVALRAKAFGFNVIFYDP---YLPDG---IEKSL 216
+G+VG G++GS +A A A G +V D L G I SL
Sbjct: 5 KKVGVVGAGQMGSGIAQLAAAAGMDVWLLDSDPAALSRGLDSISSSL 51
>gnl|CDD|214954 smart00984, UDPG_MGDP_dh_C, UDP binding domain. The
UDP-glucose/GDP-mannose dehydrogenases are a small group
of enzymes which possesses the ability to catalyse the
NAD-dependent 2-fold oxidation of an alcohol to an acid
without the release of an aldehyde intermediate.
Length = 99
Score = 30.6 bits (70), Expect = 0.46
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 195 KAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSDCVSLHCTLNEHN 244
G V+ YDPY + + GLT V L++ L +D V EH+
Sbjct: 27 LEAGAEVVVYDPYAMEEARE-YGLTYVSDLEEALKGADAV---VIATEHD 72
>gnl|CDD|236092 PRK07772, PRK07772, single-stranded DNA-binding protein;
Provisional.
Length = 186
Score = 31.5 bits (72), Expect = 0.58
Identities = 16/41 (39%), Positives = 18/41 (43%)
Query: 446 GGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPS 486
GGG SG GGGG G A P + P S+A S
Sbjct: 134 GGGGGGSGGGGGGGGGGGAPGGGGAQASAPADDPWSSAPAS 174
Score = 29.2 bits (66), Expect = 3.2
Identities = 19/57 (33%), Positives = 21/57 (36%), Gaps = 4/57 (7%)
Query: 443 SERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEPG 499
S GGG G GGG SGGG G P + P+ P SS P
Sbjct: 121 SRGGGGGGGGGGFGGGGGGSGGGGGGGGGGGAPGGGGAQASAPA----DDPWSSAPA 173
Score = 28.1 bits (63), Expect = 7.3
Identities = 15/34 (44%), Positives = 16/34 (47%)
Query: 442 GSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLP 475
G GG G GGGG P GGG + PA P
Sbjct: 134 GGGGGGSGGGGGGGGGGGAPGGGGAQASAPADDP 167
>gnl|CDD|227766 COG5479, COG5479, Uncharacterized protein potentially involved in
peptidoglycan biosynthesis [Cell envelope biogenesis,
outer membrane].
Length = 556
Score = 32.5 bits (74), Expect = 0.59
Identities = 17/54 (31%), Positives = 21/54 (38%)
Query: 412 AAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGG 465
AAAAA L PV A + + +A AP GG A + G G
Sbjct: 12 AAAAAGTVGLAPVVTASPSQTVNPELAEAPNQGAGGDATVTEDGKDPVYSLVAG 65
>gnl|CDD|221868 pfam12938, M_domain, M domain of GW182.
Length = 238
Score = 31.8 bits (72), Expect = 0.60
Identities = 26/120 (21%), Positives = 37/120 (30%), Gaps = 12/120 (10%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGT 420
GG P+G + ++PP + G G G G + A+ ++
Sbjct: 12 GGDRFPSGGSSVNSPPFSQNNLPNNLGGGGGGPGGGGGGNNPNL------ASLSSLTSQG 65
Query: 421 LPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPL 480
L + P G G G P GGGG + PN A P L
Sbjct: 66 LGKILSGLQPPPL------GNGGGSGAGGPGPVGGGGGPGVAPNNIQPNAQAQQPSTQQL 119
>gnl|CDD|223364 COG0287, TyrA, Prephenate dehydrogenase [Amino acid transport and
metabolism].
Length = 279
Score = 31.9 bits (73), Expect = 0.63
Identities = 14/58 (24%), Positives = 24/58 (41%), Gaps = 3/58 (5%)
Query: 177 TLGIVGLGRIGSAVA--LRAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSD 232
+GIVGLG +G ++A L+ +I D ++ +L L + L
Sbjct: 5 KVGIVGLGLMGGSLARALKEAGLVVRIIGRDRS-AATLKAALELGVIDELTVAGLAEA 61
>gnl|CDD|112890 pfam04094, DUF390, Protein of unknown function (DUF390). This is a
family of long proteins currently only found in the rice
genome. They have no known function. However they may be
some kind of transposable element.
Length = 843
Score = 32.5 bits (73), Expect = 0.69
Identities = 29/93 (31%), Positives = 37/93 (39%), Gaps = 12/93 (12%)
Query: 402 SSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSA----IAPAPGSER-----GGGAPPS 452
++S +R AA A A S D A + P P + GGAP S
Sbjct: 297 ATSEAARDEAAGAQLAPDPSGDAAATTSEAAGDEAAGALLGPDPSGDAQDEPAPGGAPDS 356
Query: 453 GSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADP 485
G+ GG PS P P LP PL+ A+P
Sbjct: 357 GTSIGG--PSRAAPSPRRLFPLPSAAPLN-AEP 386
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 32.1 bits (73), Expect = 0.75
Identities = 13/39 (33%), Positives = 15/39 (38%), Gaps = 6/39 (15%)
Query: 359 SAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEG 397
A GGG+P G+ PGG P G P G
Sbjct: 614 QAAGGGMPGGM------PGGMPGGMPGGAGPAGAGASSG 646
Score = 29.4 bits (66), Expect = 5.8
Identities = 8/22 (36%), Positives = 9/22 (40%)
Query: 447 GGAPPSGSGGGGAPPSGGGPPP 468
GG P GG G +G P
Sbjct: 626 GGMPGGMPGGAGPAGAGASSGP 647
Score = 29.4 bits (66), Expect = 5.8
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 7/41 (17%)
Query: 354 KEYFPSAGG--GGLPAGLNYPHAPPGGPVSSGPPGGPPGPG 392
K Y + GG GG+P G P G P +GP G G
Sbjct: 611 KMYQAAGGGMPGGMPGG-----MPGGMPGGAGPAGAGASSG 646
Score = 29.0 bits (65), Expect = 7.5
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGP 384
P GG+P G+ P G SSGP
Sbjct: 621 PGGMPGGMPGGMPGGAGPAGAGASSGP 647
>gnl|CDD|238078 cd00134, PBPb, Bacterial periplasmic transport systems use
membrane-bound complexes and substrate-bound,
membrane-associated, periplasmic binding proteins (PBPs)
to transport a wide variety of substrates, such as,
amino acids, peptides, sugars, vitamins and inorganic
ions. PBPs have two cell-membrane translocation
functions: bind substrate, and interact with the
membrane bound complex. A diverse group of periplasmic
transport receptors for lysine/arginine/ornithine (LAO),
glutamine, histidine, sulfate, phosphate, molybdate, and
methanol are included in the PBPb CD.
Length = 218
Score = 31.6 bits (72), Expect = 0.75
Identities = 26/108 (24%), Positives = 38/108 (35%), Gaps = 35/108 (32%)
Query: 193 RAKAFGFNVIFYDPYLPDGIEKSLGLTRVYTLQDLLFQSD--------CVSLHCTLNEHN 244
RAK F+ DPY G + + +S V T
Sbjct: 72 RAKQVDFS----DPYYKSGQ-------VILVKKGSPIKSVKDLKGKKVAVQKGST----- 115
Query: 245 HHLINEFTIKQMRPGAFLVNTARGGLVDDDSLA-AALKQGRIRAAALD 291
E +K+ P A +V+ DD++ A AAL+ GR A +D
Sbjct: 116 ----AEKYLKKALPEAKVVS------YDDNAEALAALENGRADAVIVD 153
>gnl|CDD|236288 PRK08562, rpl32e, 50S ribosomal protein L32e; Validated.
Length = 125
Score = 30.7 bits (70), Expect = 0.77
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 80 IILTKEDLEKFKTLRIIVRIGSGVDN-----IDVKAAGELGIAVCN 120
++ ++LEK RI S V I +K A ELGI V N
Sbjct: 78 LVHNVKELEKLDPETQAARIASTVGKRKRLEI-LKKARELGIKVLN 122
>gnl|CDD|223643 COG0569, TrkA, K+ transport systems, NAD-binding component
[Inorganic ion transport and metabolism].
Length = 225
Score = 31.5 bits (72), Expect = 0.78
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYD 205
+ I+G GR+G +VA G NV+ D
Sbjct: 2 KIIIIGAGRVGRSVARELSEEGHNVVLID 30
>gnl|CDD|237874 PRK14971, PRK14971, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 614
Score = 32.1 bits (73), Expect = 0.79
Identities = 15/99 (15%), Positives = 21/99 (21%), Gaps = 17/99 (17%)
Query: 379 PVSSGP-PGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAI 437
PV + P P AA +A Q T P S
Sbjct: 381 PVFTQPAAAPQPSAAAAASPSPS------QSSAAAQPSAP----QSATQPAGTPPTVSVD 430
Query: 438 APAPGSERGGGAPPSGSGGGGAPPSGGGPP-PNTPAGLP 475
PA P + P+ + +
Sbjct: 431 PPAAVP-----VNPPSTAPQAVRPAQFKEEKKIPVSKVS 464
Score = 29.4 bits (66), Expect = 6.2
Identities = 21/78 (26%), Positives = 27/78 (34%), Gaps = 10/78 (12%)
Query: 417 AIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
A P A S +P S+ A P AP S + G PP+ PP +
Sbjct: 387 AAAPQPSAAAAASPSPSQSSAAAQP------SAPQSATQPAGTPPTVSVDPP-AAVPVN- 438
Query: 477 NLPLSTADPSNHHPPKPE 494
P STA + E
Sbjct: 439 --PPSTAPQAVRPAQFKE 454
>gnl|CDD|219321 pfam07174, FAP, Fibronectin-attachment protein (FAP). This family
contains bacterial fibronectin-attachment proteins
(FAP). Family members are rich in alanine and proline,
are approximately 300 long, and seem to be restricted to
mycobacteria. These proteins contain a
fibronectin-binding motif that allows mycobacteria to
bind to fibronectin in the extracellular matrix.
Length = 297
Score = 31.8 bits (72), Expect = 0.86
Identities = 23/95 (24%), Positives = 32/95 (33%), Gaps = 1/95 (1%)
Query: 401 GSSSLVSRYYAAAAAAAIGTLPPVQQAHST-TPHDSAIAPAPGSERGGGAPPSGSGGGGA 459
G + ++ A A+A LP A P + A A + PP +
Sbjct: 13 GLWTTLAIAAVAGASAVAIALPATANADPAPPPPPPSTAAAAPAPAAPPPPPPPAAPPAP 72
Query: 460 PPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPE 494
P P P P+ P DP+ PP PE
Sbjct: 73 QPDDPNAAPPPPPADPNAPPPPPVDPNAPPPPAPE 107
>gnl|CDD|202367 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding
domain. This family also includes lambda crystallin.
Length = 180
Score = 31.0 bits (71), Expect = 0.88
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLG 217
+ ++G G +G+ +A G V+ D + +EK+
Sbjct: 1 KVAVIGAGTMGAGIAQVFARAGLEVVLVDIS-EEALEKARA 40
>gnl|CDD|221581 pfam12446, DUF3682, Protein of unknown function (DUF3682). This
domain family is found in eukaryotes, and is typically
between 125 and 136 amino acids in length.
Length = 133
Score = 30.5 bits (69), Expect = 0.92
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGV 393
G GG+ +G + P P G P P PGV
Sbjct: 6 GTGGVSSGSSAPAPPAGPGPGPNAPPAPAAPGV 38
Score = 29.4 bits (66), Expect = 1.9
Identities = 14/33 (42%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 441 PGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
G G SGS APP+G GP PN P
Sbjct: 1 STGGDGTGGVSSGS-SAPAPPAGPGPGPNAPPA 32
>gnl|CDD|233163 TIGR00872, gnd_rel, 6-phosphogluconate dehydrogenase
(decarboxylating). This family resembles a larger
family (gnd) of bacterial and eukaryotic
6-phosphogluconate dehydrogenases but differs from it by
a deep split in a UPGMA similarity clustering tree and
the lack of a central region of about 140 residues.
Among complete genomes, it is found is found in Bacillus
subtilis and Mycobacterium tuberculosis, both of which
also contain gnd, and in Aquifex aeolicus. The protein
from Methylobacillus flagellatus KT has been
characterized as a decarboxylating 6-phosphogluconate
dehydrogenase as part of an unusual formaldehyde
oxidation cycle. In some sequenced organisms members of
this family are the sole 6-phosphogluconate
dehydrogenase present and are probably active in the
pentose phosphate cycle [Energy metabolism, Pentose
phosphate pathway].
Length = 298
Score = 31.4 bits (71), Expect = 1.0
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 178 LGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIE--KSLGLTRVYTLQDLL 228
LG++GLGR+G+ + R G + + YD + D ++ K T V L++L
Sbjct: 3 LGLIGLGRMGANIVRRLAKRGHDCVGYD-HDQDAVKAMKEDRTTGVANLRELS 54
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 31.3 bits (71), Expect = 1.0
Identities = 20/120 (16%), Positives = 24/120 (20%), Gaps = 27/120 (22%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
P APP P P P P A A G +
Sbjct: 53 PQAPP-------PVAQLPQPLPQP------------PPTQALQALPAGDQQQHNTPTGSP 93
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPP 491
+ A P +G G P P + N S D
Sbjct: 94 AANPPATFAL--------PAGPAGPTIQTEPGQLYPVQVPVMVTQNPANSPLDQPAQQRA 145
Score = 31.3 bits (71), Expect = 1.3
Identities = 14/89 (15%), Positives = 24/89 (26%), Gaps = 9/89 (10%)
Query: 411 AAAAAAAIGTLP--PVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPP 468
+ A + LP Q + G+P + A P+G P
Sbjct: 52 SPQAPPPVAQLPQPLPQPPPTQALQALPAGDQQQHNTPTGSPAANPPATFALPAGPAGPT 111
Query: 469 -------NTPAGLPHNLPLSTADPSNHHP 490
P +P + + A+ P
Sbjct: 112 IQTEPGQLYPVQVPVMVTQNPANSPLDQP 140
>gnl|CDD|202773 pfam03807, F420_oxidored, NADP oxidoreductase coenzyme
F420-dependent.
Length = 93
Score = 29.5 bits (67), Expect = 1.0
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIF 203
+GI+G G +G A+A A G V+
Sbjct: 1 KIGIIGAGNMGEALARGLAAAGHEVVI 27
>gnl|CDD|222095 pfam13388, DUF4106, Protein of unknown function (DUF4106). This
family of proteins are found in large numbers in the
Trichomonas vaginalis proteome. The function of this
protein is unknown.
Length = 422
Score = 31.6 bits (71), Expect = 1.1
Identities = 31/118 (26%), Positives = 42/118 (35%), Gaps = 12/118 (10%)
Query: 356 YFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAA 415
Y P AGG +PAG Y A G + PP P PG+ P+ +SS R+ A
Sbjct: 150 YVP-AGGTYIPAGGTYILAS-GTYIPPNPPREAPAPGL-PKTF---TSSHGHRHRHAPKP 203
Query: 416 AAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
T+ Q + PA ++ P P + PP T G
Sbjct: 204 TQQPTVQNPAQQPTVQN------PAQQPQQQPQQQPVQPAQQPTPQNPAQQPPQTEQG 255
>gnl|CDD|220915 pfam10961, DUF2763, Protein of unknown function (DUF2763). This
eukaryotic family of proteins has no known function.
Length = 91
Score = 29.3 bits (66), Expect = 1.1
Identities = 9/28 (32%), Positives = 9/28 (32%)
Query: 446 GGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
G G P G G GG P G
Sbjct: 64 GPGPPGGGRRMGRIGGGGGPSRPPMAGG 91
Score = 28.5 bits (64), Expect = 2.4
Identities = 13/29 (44%), Positives = 13/29 (44%)
Query: 445 RGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
RGG PP G G GGGP AG
Sbjct: 62 RGGPGPPGGGRRMGRIGGGGGPSRPPMAG 90
>gnl|CDD|213572 TIGR00936, ahcY, adenosylhomocysteinase. This enzyme hydrolyzes
adenosylhomocysteine as part of a cycle for the
regeneration of the methyl donor S-adenosylmethionine.
Species that lack this enzyme are likely to have
adenosylhomocysteine nucleosidase (EC 3.2.2.9), an
enzyme which also acts as 5'-methyladenosine
nucleosidase (see TIGR01704) [Energy metabolism, Amino
acids and amines].
Length = 407
Score = 31.2 bits (71), Expect = 1.2
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 8/94 (8%)
Query: 173 IRGDTLGIVGLGRIGSAVALRAKAFGFNVIF--YDPYLPDGIEKSLGLTRVYTLQDLLFQ 230
I G T+ + G G G +A+RA+ G VI DP +E ++ RV T+++
Sbjct: 194 IAGKTVVVAGYGWCGKGIAMRARGMGARVIVTEVDPI--RALEAAMDGFRVMTMEEAAKI 251
Query: 231 SDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVN 264
D + + T N +I + M+ GA + N
Sbjct: 252 GD-IFITAT---GNKDVIRGEHFENMKDGAIVAN 281
>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
Length = 421
Score = 31.2 bits (70), Expect = 1.3
Identities = 20/97 (20%), Positives = 33/97 (34%), Gaps = 4/97 (4%)
Query: 387 GPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERG 446
P P V+P + S++ A+A A + + P T A P +
Sbjct: 322 AIPSPAVIPSSVTTQSATTTQ---ASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQP 378
Query: 447 GGAPPSGSGGGGA-PPSGGGPPPNTPAGLPHNLPLST 482
+ G + GP + PA N+P+S
Sbjct: 379 MSTTETQQSSTGNITSTANGPTTSLPAAPASNIPVSP 415
Score = 29.3 bits (65), Expect = 5.5
Identities = 22/109 (20%), Positives = 34/109 (31%), Gaps = 4/109 (3%)
Query: 394 VPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSG 453
V SS ++ AA + A+ Q+ +TT + + G P
Sbjct: 304 VTPSSAVTQSSAITPSSAAIPSPAVIPSSVTTQSATTTQASAVALSSAGVLPSDVTLPGT 363
Query: 454 SGGGGAPPSGGGPPP----NTPAGLPHNLPLSTADPSNHHPPKPESSEP 498
A P P P T N+ + P+ P P S+ P
Sbjct: 364 VALPAAEPVNMQPQPMSTTETQQSSTGNITSTANGPTTSLPAAPASNIP 412
>gnl|CDD|237116 PRK12490, PRK12490, 6-phosphogluconate dehydrogenase-like protein;
Reviewed.
Length = 299
Score = 30.9 bits (70), Expect = 1.3
Identities = 17/52 (32%), Positives = 32/52 (61%), Gaps = 3/52 (5%)
Query: 178 LGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEK--SLGLTRVYTLQDL 227
LG++GLG++G +A R + G V+ YD + ++ LG+T ++L++L
Sbjct: 3 LGLIGLGKMGGNMAERLREDGHEVVGYDVN-QEAVDVAGKLGITARHSLEEL 53
>gnl|CDD|218108 pfam04487, CITED, CITED. CITED, CBP/p300-interacting
transactivator with ED-rich tail, are characterized by a
conserved 32-amino acid sequence at the C-terminus.
CITED proteins do not bind DNA directly and are thought
to function as transcriptional co-activators.
Length = 206
Score = 30.6 bits (69), Expect = 1.4
Identities = 26/116 (22%), Positives = 38/116 (32%), Gaps = 21/116 (18%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGT 420
GGG+ A A SGP GG +P + SS + + +
Sbjct: 49 PGGGMDASGRPRSA------MSGPMGGGHPHQSMPAYMMFNPSSKPQPFMLVPGPQLMAS 102
Query: 421 LPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
+ +Q+ ++ G GAP GGGG G P G+ H
Sbjct: 103 MQ-LQKLNT---------QYQGHA---GAPAGHPGGGGPQQFRPGAGQ--PPGMQH 143
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 31.1 bits (70), Expect = 1.5
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 6/75 (8%)
Query: 425 QQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTAD 484
+ S TP S A S G +P + SG P+ PPP+ P+ H P A
Sbjct: 98 ESVGSPTPSPSGSAEELAS---GLSPENTSGSSPESPASHSPPPSPPS---HPGPHEPAP 151
Query: 485 PSNHHPPKPESSEPG 499
P +H+P +
Sbjct: 152 PESHNPSPNQQPSSF 166
Score = 29.6 bits (66), Expect = 4.2
Identities = 31/145 (21%), Positives = 41/145 (28%), Gaps = 12/145 (8%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVV-PEGINGGSSSLVSRYYAAAAAA 416
P G P H+PP P S P P P P SS L + +
Sbjct: 120 PENTSGSSPES-PASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEP 178
Query: 417 AIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPH 476
T P + + P S +PP G +P P PNT + H
Sbjct: 179 EPPTSEPEPDSP-----GPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEH 233
Query: 477 NLPLSTADPSNHHPPKPESSEPGVH 501
+P+ P H
Sbjct: 234 -----EDEPTEPEREGPPFPGHRSH 253
>gnl|CDD|218673 pfam05642, Sporozoite_P67, Sporozoite P67 surface antigen. This
family consists of several Theileria P67 surface
antigens. A stage specific surface antigen of Theileria
parva, p67, is the basis for the development of an
anti-sporozoite vaccine for the control of East Coast
fever (ECF) in cattle. The antigen has been shown to
contain five distinct linear peptide sequences
recognised by sporozoite-neutralising murine monoclonal
antibodies.
Length = 727
Score = 31.2 bits (70), Expect = 1.6
Identities = 36/149 (24%), Positives = 45/149 (30%), Gaps = 11/149 (7%)
Query: 360 AGGGGLPAGLNYPHA--PPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
+G G+P GL P P GG + P G GV P GG + A+ +
Sbjct: 184 SGVVGVP-GLGVPGVGVPGGGGAGALPGVGVGRAGVSPGVGVGGLGGVPGVGILASNTSR 242
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAP------PSGSGGGGAPPSGGGPPPNTP 471
G Q+ PG G PSGS P S G P P
Sbjct: 243 EGQTQDDQERDGDGRVIEPGVGLPGVRVGDSTSSPSTTRPSGSTTTTTPASSGPSAPGGP 302
Query: 472 AGLPHNLPLSTADPSNHHPPKPESSEPGV 500
N + D + P P P
Sbjct: 303 GSSSRNAVTRSTDSISG--PIPSPGAPRA 329
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 31.4 bits (71), Expect = 1.6
Identities = 24/85 (28%), Positives = 28/85 (32%), Gaps = 7/85 (8%)
Query: 405 LVS-RYYAAAAAAAIGTLPPVQQAHSTT--PHDSAIAPAPGSERGGGAPPSGSGGGGAPP 461
LVS R +G P + +A P +A APG G A G G P
Sbjct: 867 LVSVREPRTEGGVRVGYAPTLAEALDQVFGPGTGRVATAPG---GDAASAPPPGAGPPAP 923
Query: 462 SGGGPPPNTPAGLPHNLPLSTADPS 486
PPP T P P P
Sbjct: 924 PQAVPPPRTTQP-PAAPPRGPDVPP 947
>gnl|CDD|218881 pfam06070, Herpes_UL32, Herpesvirus large structural phosphoprotein
UL32. The large phosphorylated protein (UL32-like) of
herpes viruses is the polypeptide most frequently
reactive in immuno-blotting analyses with antisera when
compared with other viral proteins.
Length = 777
Score = 31.0 bits (70), Expect = 1.6
Identities = 22/115 (19%), Positives = 28/115 (24%), Gaps = 3/115 (2%)
Query: 354 KEYFPSAGGGGLPAGL-NYPHAPPGGPVSSGPPGGPPGPGVVPE--GINGGSSSLVSRYY 410
K PS GG ++ P P + GG + S
Sbjct: 646 KVKIPSGLGGFTSPISLLESALEDVLTSATSTPVKKNDPYLWDTNGEKAGGGTESASTTD 705
Query: 411 AAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGG 465
A + PV P S + S G G P G GA
Sbjct: 706 VFQNFAGLNKKTPVGGPFQPKPPLSRALDSASSPGGSGGKPGLDGVEGAKGKDDD 760
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 31.1 bits (70), Expect = 1.8
Identities = 20/101 (19%), Positives = 22/101 (21%), Gaps = 8/101 (7%)
Query: 377 GGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSA 436
G S G G R A AAA G PV A
Sbjct: 439 PGGGSRSGSVGGGGRRDGAGADGKPRPRRKPRVEGEADAAAAGAETPVVAA--AAAQAPG 496
Query: 437 IAPAPGSE------RGGGAPPSGSGGGGAPPSGGGPPPNTP 471
+ A G R P + P P P
Sbjct: 497 VVAADGERAPRKRRRRRNGRPVEGAEPVSTPVPAPAAPRKP 537
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 30.9 bits (70), Expect = 1.8
Identities = 21/95 (22%), Positives = 27/95 (28%), Gaps = 3/95 (3%)
Query: 403 SSLVSRYYAAAAAAAIGTLPPVQQ--AHSTTPHDSAIAPAPGSE-RGGGAPPSGSGGGGA 459
+ LV A PV+ A ST P +A A P E A P
Sbjct: 358 ALLVPVPAPQPAKPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPRPV 417
Query: 460 PPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPE 494
P P + P +P+ P E
Sbjct: 418 APPVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKE 452
>gnl|CDD|176197 cd08235, iditol_2_DH_like, L-iditol 2-dehydrogenase. Putative
L-iditol 2-dehydrogenase based on annotation of some
members in this subgroup. L-iditol 2-dehydrogenase
catalyzes the NAD+-dependent conversion of L-iditol to
L-sorbose in fructose and mannose metabolism. This
enzyme is related to sorbitol dehydrogenase, alcohol
dehydrogenase, and other medium chain
dehydrogenase/reductases. The zinc-dependent alcohol
dehydrogenase (ADH-Zn)-like family of proteins is a
diverse group of proteins related to the first
identified member, class I mammalian ADH. This group is
also called the medium chain dehydrogenases/reductase
family (MDR) to highlight its broad range of activities
and to distinguish from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal GroES-like catalytic
domain. The MDR group contains a host of activities,
including the founding alcohol dehydrogenase (ADH),
quinone reductase, sorbitol dehydrogenase, formaldehyde
dehydrogenase, butanediol DH, ketose reductase, cinnamyl
reductase, and numerous others. The zinc-dependent
alcohol dehydrogenases (ADHs) catalyze the
NAD(P)(H)-dependent interconversion of alcohols to
aldehydes or ketones. Active site zinc has a catalytic
role, while structural zinc aids in stability. ADH-like
proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
generally have 2 tightly bound zinc atoms per subunit.
The active site zinc is coordinated by a histidine, two
cysteines, and a water molecule. The second zinc seems
to play a structural role, affects subunit interactions,
and is typically coordinated by 4 cysteines.
Length = 343
Score = 30.6 bits (70), Expect = 1.9
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 175 GDTLGIVGLGRIGSAVALRAKAFGFNVIF 203
GDT+ ++G G IG A+ AKA G +
Sbjct: 166 GDTVLVIGAGPIGLLHAMLAKASGARKVI 194
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 30.7 bits (69), Expect = 1.9
Identities = 27/150 (18%), Positives = 32/150 (21%), Gaps = 50/150 (33%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
PS G P P P P PG P A + A
Sbjct: 382 PSPAGSP-DVKKKAPEPDLPQPDRHPGPAKPEAPGARP---------------AELPSPA 425
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHN 477
P P S P PPS P A
Sbjct: 426 SAPTP------------EQQPPVARS------AP-------LPPSPQASAPRNVASGKPG 460
Query: 478 LPLS---------TADPSNHHPPKPESSEP 498
+ L T + S P + SS+
Sbjct: 461 VDLGSWQGKFMNFTRNGSRKQPVQASSSDA 490
>gnl|CDD|227938 COG5651, COG5651, PPE-repeat proteins [Cell motility and
secretion].
Length = 490
Score = 30.7 bits (69), Expect = 2.0
Identities = 21/118 (17%), Positives = 30/118 (25%), Gaps = 11/118 (9%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAA 417
+ G G G S G+ + + + +AAA
Sbjct: 294 GNIGSGNAVDSGGSALVGAIGQTSQATANAGSVNATGGAAAGSGNLGVAN---SGSAAAP 350
Query: 418 IGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLP 475
G Q A G+ G G G GG P G G +G+
Sbjct: 351 FGIAGANQAALGGAN--------SGAGNFGLGNNPGGGLGGKPLGGTGNGGIGASGIG 400
Score = 28.7 bits (64), Expect = 7.7
Identities = 27/132 (20%), Positives = 30/132 (22%), Gaps = 13/132 (9%)
Query: 356 YFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAA 415
P A G G G G+ G S +A
Sbjct: 251 GNPGAPGLASQFSATNLGTLLGSLNPYLGNIGATNIGLAAAGTGNIGSGNAVDSGGSALV 310
Query: 416 AAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLP 475
AIG A A A GGA GSG G SG P AG
Sbjct: 311 GAIGQTS------------QATANAGSVNATGGAAA-GSGNLGVANSGSAAAPFGIAGAN 357
Query: 476 HNLPLSTADPSN 487
+
Sbjct: 358 QAALGGANSGAG 369
Score = 28.4 bits (63), Expect = 9.6
Identities = 22/118 (18%), Positives = 30/118 (25%), Gaps = 5/118 (4%)
Query: 361 GGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGI-NGGSSSLVSRYYAAAAAAAIG 419
G G G N G P+ GG G+ G N G ++ + A
Sbjct: 367 GAGNFGLGNNPGGGLGGKPLGGTGNGGIGASGIGNTGYGNSGIANAGLSNAGSNNAGGEN 426
Query: 420 TLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGG----GAPPSGGGPPPNTPAG 473
+A G+ G G G +G NT G
Sbjct: 427 AGNANNTGGGNVGLWNAGDFNAGAAGTGFTNNGSYNTGFLNFGNDNTGIFNGGNTSNG 484
>gnl|CDD|219805 pfam08347, CTNNB1_binding, N-terminal CTNNB1 binding. This region
tends to appear at the N-terminus of proteins also
containing DNA-binding HMG (high mobility group) boxes
(pfam00505) and appears to bind the armadillo repeat of
CTNNB1 (beta-catenin), forming a stable complex.
Signaling by Wnt through TCF/LCF is involved in
developmental patterning, induction of neural tissues,
cell fate decisions and stem cell differentiation.
Isoforms of HMG T-cell factors lacking the N-terminal
CTNNB1-binding domain cannot fulfill their role as
transcriptional activators in T-cell differentiation.
Length = 200
Score = 29.9 bits (67), Expect = 2.1
Identities = 21/125 (16%), Positives = 28/125 (22%), Gaps = 15/125 (12%)
Query: 372 PHAPPGGPVSSGPP-GGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHST 430
H GPP G P + + GS + +
Sbjct: 87 SHKHQDMGYYKGPPYSGYPFLMLPNPYLPNGS------------LSPLPPSSNKVPVVQP 134
Query: 431 TPHDSAIAP--APGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNH 488
H + P +E P P G P P P + PLS
Sbjct: 135 PHHVHPLTPLITYSNEHFSPGTPPPHLPYDVDPKTGIPRPPHPPDISPFYPLSPGGVGQI 194
Query: 489 HPPKP 493
P
Sbjct: 195 PHPLG 199
>gnl|CDD|177553 PHA03185, PHA03185, UL14 tegument protein; Provisional.
Length = 214
Score = 30.0 bits (67), Expect = 2.3
Identities = 19/56 (33%), Positives = 22/56 (39%)
Query: 435 SAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHP 490
SA A PG G G+ P+ G P GG P P TP P S +D
Sbjct: 156 SAPAVRPGDLSGPGSRPTSGPVAGGLPGGGAPAPPTPPRPGPTDPASESDCGRDSR 211
>gnl|CDD|221651 pfam12583, TPPII_N, Tripeptidyl peptidase II N terminal. This
domain family is found in bacteria and eukaryotes, and
is approximately 190 amino acids in length. The family
is found in association with pfam00082. Tripeptidyl
peptidase II (TPPII) is a crucial component of the
proteolytic cascade acting downstream of the 26S
proteasome in the ubiquitin-proteasome pathway. It is an
amino peptidase belonging to the subtilase family
removing tripeptides from the free N terminus of
oligopeptides.
Length = 134
Score = 29.1 bits (65), Expect = 2.4
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 4/66 (6%)
Query: 399 NGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGG 458
NG + + AAAAAA +A +T + A + + P+ GG
Sbjct: 1 NGAKNGSSNANATAAAAAAATANATKPKAAATAG--NPAAGDGVTTQTD--GPAEGSGGP 56
Query: 459 APPSGG 464
A P G
Sbjct: 57 ASPKKG 62
>gnl|CDD|224996 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 30.0 bits (68), Expect = 2.4
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIF 203
+ I+G G IGSA+ALR G VI
Sbjct: 3 IIAIIGTGNIGSALALRLAKAGHEVII 29
>gnl|CDD|219865 pfam08493, AflR, Aflatoxin regulatory protein. This domain is
found in the aflatoxin regulatory protein (AflR) which
is involved in the regulation of the biosynthesis of
aflatoxin in the fungal genus Aspergillus. It occurs
together with the fungal Zn(2)-Cys(6) binuclear cluster
domain (pfam00172).
Length = 275
Score = 29.9 bits (67), Expect = 2.5
Identities = 15/68 (22%), Positives = 22/68 (32%), Gaps = 6/68 (8%)
Query: 430 TTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPS--- 486
++A +P + + S P G P PH P T+ PS
Sbjct: 2 LETPNTASSPTIPANTTANT--TSSSHPQPPVQSGPSSIQPPVATPHT-PNGTSSPSPKF 58
Query: 487 NHHPPKPE 494
+H P E
Sbjct: 59 SHQSPPAE 66
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 30.6 bits (70), Expect = 2.6
Identities = 15/92 (16%), Positives = 21/92 (22%), Gaps = 10/92 (10%)
Query: 409 YYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPP 468
Y + AA A S A A + + APP
Sbjct: 36 YGPGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPPAAAAPA----APPKPAAAAA 91
Query: 469 NTPAGLPHNLPLSTADPSNHHPPKPESSEPGV 500
A P + + P + E V
Sbjct: 92 AAAA------PAAPPAAAAAAAPAAAAVEDEV 117
Score = 30.2 bits (69), Expect = 3.1
Identities = 13/88 (14%), Positives = 19/88 (21%), Gaps = 7/88 (7%)
Query: 383 GPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPG 442
GP S+ AAA AA P + + PA
Sbjct: 37 GPGSTAAPTAAAAAAAAAASA-------PAAAPAAKAPAAPAPAPPAAAAPAAPPKPAAA 89
Query: 443 SERGGGAPPSGSGGGGAPPSGGGPPPNT 470
+ + A P+
Sbjct: 90 AAAAAAPAAPPAAAAAAAPAAAAVEDEV 117
Score = 29.5 bits (67), Expect = 5.2
Identities = 16/86 (18%), Positives = 24/86 (27%), Gaps = 3/86 (3%)
Query: 395 PEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGS 454
P +++ + AA+A AA P +A AP A +
Sbjct: 38 PGSTAAPTAAAAAAAAAASAPAAAPAAKAPAAPAPAPP-AAAAPAAPPKPAAAAAAAAAP 96
Query: 455 GGGGAPPSGGGPPPNTPAGLPHNLPL 480
A + P A PL
Sbjct: 97 AAPPAAAA--AAAPAAAAVEDEVTPL 120
>gnl|CDD|131310 TIGR02257, cobalto_cobN, cobaltochelatase, CobN subunit.
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Heme, porphyrin, and cobalamin].
Length = 1122
Score = 30.5 bits (69), Expect = 2.8
Identities = 29/77 (37%), Positives = 35/77 (45%), Gaps = 14/77 (18%)
Query: 327 ELREMAASEIRRA--IVGRIPDCLRNCVNKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGP 384
+L+E S+IR I GR PD + A GL AGLN G VS+GP
Sbjct: 678 DLKE---SQIRDGLHIFGRAPDD-LSDAPWRQSTEAEIAGLLAGLN------GRYVSAGP 727
Query: 385 PGGPP--GPGVVPEGIN 399
G P P V+P G N
Sbjct: 728 SGAPTRGRPDVLPTGRN 744
>gnl|CDD|220441 pfam09849, DUF2076, Uncharacterized protein conserved in bacteria
(DUF2076). This domain, found in various hypothetical
prokaryotic proteins, has no known function. The domain,
however, is found in various periplasmic ligand-binding
sensor proteins.
Length = 234
Score = 29.6 bits (67), Expect = 3.0
Identities = 11/36 (30%), Positives = 12/36 (33%)
Query: 438 APAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
APA P GSGG +G P P
Sbjct: 98 APAVQPPAPPARPGWGSGGPSQQGAGQQPGYAQPGP 133
>gnl|CDD|198065 smart00997, AdoHcyase_NAD, S-adenosyl-L-homocysteine hydrolase, NAD
binding domain.
Length = 162
Score = 29.3 bits (67), Expect = 3.0
Identities = 23/95 (24%), Positives = 35/95 (36%), Gaps = 24/95 (25%)
Query: 180 IVGLGRIGSAVALRAKAFGFNVIFY--DPY-----LPDGIEKSLGLTRVYTLQDLLFQSD 232
+ G G +G VA R + G VI DP DG V +++ ++D
Sbjct: 28 VAGYGDVGKGVAARLRGLGARVIVTEIDPIRALEAAMDGF-------EVMKMEEAAKRAD 80
Query: 233 CVSLHCTLNEH---NHHLINEFTIKQMRPGAFLVN 264
+ T N+ H + M+ GA L N
Sbjct: 81 IF-VTATGNKDVITREHF------RAMKDGAILAN 108
>gnl|CDD|181018 PRK07530, PRK07530, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 292
Score = 29.6 bits (67), Expect = 3.3
Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLGLTR 220
+G++G G++G+ +A G++V+ D D +E L
Sbjct: 6 KVGVIGAGQMGNGIAHVCALAGYDVLLND-VSADRLEAGLATIN 48
>gnl|CDD|218232 pfam04731, Caudal_act, Caudal like protein activation region. This
family consists of the amino termini of proteins
belonging to the caudal-related homeobox protein family.
This region is thought to mediate transcription
activation. The level of activation caused by mouse Cdx2
is affected by phosphorylation at serine 60 via the
mitogen-activated protein kinase pathway. Caudal family
proteins are involved in the transcriptional regulation
of multiple genes expressed in the intestinal
epithelium, and are important in differentiation and
maintenance of the intestinal epithelial lining. Caudal
proteins always have a homeobox DNA binding domain
(pfam00046).
Length = 135
Score = 29.0 bits (65), Expect = 3.3
Identities = 21/109 (19%), Positives = 30/109 (27%), Gaps = 19/109 (17%)
Query: 371 YPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHST 430
Y H P G P G G P + + +A T P Q A+S
Sbjct: 30 YHHVPGMNLDPHGQPSGAWGSPYGPPREDWSAYGP-----GPGPSATAATGSPGQMAYSP 84
Query: 431 TPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPP-PNTPAGLPHNL 478
+ P G G G P+ G +P+ +
Sbjct: 85 PDYSPV-------------HPPGPGPGLLQPADSGSVEQLSPSAQRRSP 120
>gnl|CDD|217563 pfam03446, NAD_binding_2, NAD binding domain of 6-phosphogluconate
dehydrogenase. The NAD binding domain of
6-phosphogluconate dehydrogenase adopts a Rossmann fold.
Length = 163
Score = 29.0 bits (66), Expect = 3.3
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEK--SLGLTRVYTLQDLLFQSDCV 234
+G +GLG +GS +AL G+ V Y+ P+ +E+ + G + + + +D V
Sbjct: 2 KIGFIGLGVMGSPMALNLLKAGYTVTVYNRT-PEKVEELVAEGAVGAASPAEFVASADVV 60
>gnl|CDD|176224 cd08263, Zn_ADH10, Alcohol dehydrogenases of the MDR family.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES. These
proteins typically form dimers (typically higher plants,
mammals) or tetramers (yeast, bacteria), and have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. NAD(H)-binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
In human ADH catalysis, the zinc ion helps coordinate
the alcohol, followed by deprotonation of a histidine,
the ribose of NAD, a serine, then the alcohol, which
allows the transfer of a hydride to NAD+, creating NADH
and a zinc-bound aldehyde or ketone. In yeast and some
bacteria, the active site zinc binds an aldehyde,
polarizing it, and leading to the reverse reaction.
Length = 367
Score = 29.6 bits (67), Expect = 3.5
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 157 FTGPEQLREAASGCARIRGDTLGIVGLGRIGSAVALRAKAFGFNVI 202
FT L+ AA G+T+ ++G+G +GS+ AKAFG + I
Sbjct: 173 FTAYGALKHAADVRP---GETVAVIGVGGVGSSAIQLAKAFGASPI 215
>gnl|CDD|240324 PTZ00234, PTZ00234, variable surface protein Vir12; Provisional.
Length = 433
Score = 30.0 bits (67), Expect = 3.5
Identities = 22/111 (19%), Positives = 41/111 (36%), Gaps = 10/111 (9%)
Query: 396 EGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSG 455
+G NG SS + ++ +++ T P + P +A+ +PG G +G+
Sbjct: 226 QGSNGSQSSFLGWFWGSSSPK---TAPSKGSPGAQEPAKTAVVKSPGGIPSAGGKRAGAE 282
Query: 456 GGGAPPSGGGPPPN---TPAGLPHN-LPLSTADPSN---HHPPKPESSEPG 499
G GA P+ N +P++ S H P + +
Sbjct: 283 GAGANKGLASVAPSQSREVLNGTQNPVPVAPLGSSQAGVHMPHGSKDIQQV 333
>gnl|CDD|180801 PRK07033, PRK07033, hypothetical protein; Provisional.
Length = 427
Score = 30.0 bits (68), Expect = 3.5
Identities = 11/52 (21%), Positives = 15/52 (28%), Gaps = 1/52 (1%)
Query: 433 HDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGP-PPNTPAGLPHNLPLSTA 483
+ S+ + GS P AP +G P PL A
Sbjct: 1 NTSSDPFSAGSGGFVPPNPGDRTPAAAPAAGAPFQPRPGRGAASGLNPLVAA 52
Score = 28.9 bits (65), Expect = 7.0
Identities = 11/43 (25%), Positives = 14/43 (32%)
Query: 449 APPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPP 491
+GSGG P G P PA P ++ P
Sbjct: 6 PFSAGSGGFVPPNPGDRTPAAAPAAGAPFQPRPGRGAASGLNP 48
>gnl|CDD|114045 pfam05297, Herpes_LMP1, Herpesvirus latent membrane protein 1
(LMP1). This family consists of several latent membrane
protein 1 or LMP1s mostly from Epstein-Barr virus. LMP1
of EBV is a 62-65 kDa plasma membrane protein possessing
six membrane spanning regions, a short cytoplasmic
N-terminus and a long cytoplasmic carboxy tail of 200
amino acids. EBV latent membrane protein 1 (LMP1) is
essential for EBV-mediated transformation and has been
associated with several cases of malignancies. EBV-like
viruses in Cynomolgus monkeys (Macaca fascicularis) have
been associated with high lymphoma rates in
immunosuppressed monkeys.
Length = 382
Score = 29.6 bits (66), Expect = 3.7
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 9/85 (10%)
Query: 420 TLPPVQQAHSTTPHDSAIAPAPGSER-----GGGAPPSGSGGGGAPPSGGGPP--PNTPA 472
+LP QQA + H+S G G PP S GAP GGGP P P
Sbjct: 200 SLPHPQQATDDSGHESDSNSNEGRHHLLVSGAGDGPPLCSQNLGAP--GGGPDNGPQDPD 257
Query: 473 GLPHNLPLSTADPSNHHPPKPESSE 497
N P + ++ P P++++
Sbjct: 258 NTDDNGPQDPDNTDDNGPQDPDNTD 282
>gnl|CDD|234681 PRK00182, tatB, sec-independent translocase; Provisional.
Length = 160
Score = 29.0 bits (65), Expect = 3.8
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 423 PVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGG 465
QQA + ++A ++ G S + G PP GG
Sbjct: 112 RQQQASAGRADNNANVVTRPAD-GSQPRSSQNDPKGGPPYAGG 153
>gnl|CDD|221371 pfam12004, DUF3498, Domain of unknown function (DUF3498). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 433 to 538 amino acids in length. This domain is
found associated with pfam00616, pfam00168. This domain
has two conserved sequence motifs: DLQ and PLSFQNP.
Length = 489
Score = 29.7 bits (66), Expect = 3.8
Identities = 18/139 (12%), Positives = 31/139 (22%), Gaps = 12/139 (8%)
Query: 353 NKEYFPSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAA 412
N E + G G + +P + G V +
Sbjct: 209 NSEDCSLSAGFSNSGGEEFTRRSTDFTRRQLSLPDRQHQPALPRQNSAGPQRRVDQPSPP 268
Query: 413 AAAAAIGTLPPVQQAHSTTPHDSAIAPAPG-----------SERGGGAPPSGSGGGGAP- 460
+ G +PP + + + P S+ +G P
Sbjct: 269 GGGSHRGRIPPSLLSSLPSEGSMLSSEWPQSGARPRQQSSSSKGDSPELRPAAGHLQQPS 328
Query: 461 PSGGGPPPNTPAGLPHNLP 479
P T A + N
Sbjct: 329 PVNMSALERTAAWVLMNSQ 347
>gnl|CDD|176178 cd05188, MDR, Medium chain reductase/dehydrogenase
(MDR)/zinc-dependent alcohol dehydrogenase-like family.
The medium chain reductase/dehydrogenases
(MDR)/zinc-dependent alcohol dehydrogenase-like family,
which contains the zinc-dependent alcohol dehydrogenase
(ADH-Zn) and related proteins, is a diverse group of
proteins related to the first identified member, class I
mammalian ADH. MDRs display a broad range of activities
and are distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH) , quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. ADH-like proteins
typically form dimers (typically higher plants, mammals)
or tetramers (yeast, bacteria), and generally have 2
tightly bound zinc atoms per subunit, a catalytic zinc
at the active site and a structural zinc in a lobe of
the catalytic domain. The active site zinc is
coordinated by a histidine, two cysteines, and a water
molecule. The second zinc seems to play a structural
role, affects subunit interactions, and is typically
coordinated by 4 cysteines. Other MDR members have only
a catalytic zinc, and some contain no coordinated zinc.
Length = 271
Score = 29.6 bits (67), Expect = 3.8
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 175 GDTLGIVGLGRIGSAVALRAKAFGFNVI 202
GDT+ ++G G +G A AKA G VI
Sbjct: 135 GDTVLVLGAGGVGLLAAQLAKAAGARVI 162
>gnl|CDD|236695 PRK10439, PRK10439, enterobactin/ferric enterobactin esterase;
Provisional.
Length = 411
Score = 29.6 bits (67), Expect = 3.9
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 26 QTRPLVALLDGRDCSIEMPI 45
+ RPL LLDG+ + MP+
Sbjct: 207 EERPLAILLDGQFWAESMPV 226
>gnl|CDD|223105 COG0026, PurK, Phosphoribosylaminoimidazole carboxylase (NCAIR
synthetase) [Nucleotide transport and metabolism].
Length = 375
Score = 29.5 bits (67), Expect = 4.0
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDP 206
T+GI+G G++G +AL A G VI DP
Sbjct: 3 TVGILGGGQLGRMMALAAARLGIKVIVLDP 32
>gnl|CDD|223573 COG0499, SAM1, S-adenosylhomocysteine hydrolase [Coenzyme
metabolism].
Length = 420
Score = 29.5 bits (67), Expect = 4.2
Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 18/99 (18%)
Query: 173 IRGDTLGIVGLGRIGSAVALRAKAFGFNVIFY--DPY-----LPDGIEKSLGLTRVYTLQ 225
+ G + + G G +G +A+R + G VI DP DG RV T++
Sbjct: 207 LAGKNVVVAGYGWVGRGIAMRLRGMGARVIVTEVDPIRALEAAMDGF-------RVMTME 259
Query: 226 DLLFQSDCVSLHCTLNEHNHHLINEFTIKQMRPGAFLVN 264
+ D + T N +I + ++M+ GA L N
Sbjct: 260 EAAKTGDIF-VTAT---GNKDVIRKEHFEKMKDGAILAN 294
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 29.3 bits (66), Expect = 4.4
Identities = 13/44 (29%), Positives = 14/44 (31%), Gaps = 3/44 (6%)
Query: 439 PAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG---LPHNLP 479
G GG G G GG GG P +PH P
Sbjct: 22 RGGGGRGGGRGGGRGRGRGGGGGGRGGGGGGGPGKVIVVPHRFP 65
>gnl|CDD|106964 PHA00652, PHA00652, hypothetical protein.
Length = 128
Score = 28.5 bits (63), Expect = 4.4
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 392 GVVPEGINGGSSSLVSRYYAAAAAAA-----IGTLPPVQQAHSTTPHDSAIAPAPGSERG 446
G V I G S+ VS+ YAA A A + L +Q+ H+ TPH A +E G
Sbjct: 51 GQVELFIVAGKSNQVSKLYAADAGLAMLRFWLRFLAGIQKPHAMTPHQVETAQVLIAEVG 110
>gnl|CDD|188426 TIGR03911, pyrrolys_PylD, pyrrolysine biosynthesis protein PylD.
This protein is PylD, part of a three-gene cassette that
is sufficient to direct the biosynthesis of pyrrolysine,
the twenty-second amino acid, incorporated in some
species at a UAG canonical stop codon [Amino acid
biosynthesis, Other].
Length = 266
Score = 29.4 bits (66), Expect = 4.6
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 180 IVGLGRIGSAVALRAKAFGFNVIFYDP 206
++GLG +G A A GF+V YD
Sbjct: 150 VIGLGPVGRAAAFHLVDKGFHVYVYDK 176
>gnl|CDD|233515 TIGR01659, sex-lethal, sex-lethal family splicing factor. This
model describes the sex-lethal family of splicing
factors found in Dipteran insects. The sex-lethal
phenotype, however, may be limited to the Melanogasters
and closely related species. In Drosophila the protein
acts as an inhibitor of splicing. This subfamily is most
closely related to the ELAV/HUD subfamily of splicing
factors (TIGR01661).
Length = 346
Score = 29.2 bits (65), Expect = 4.9
Identities = 11/31 (35%), Positives = 12/31 (38%)
Query: 447 GGAPPSGSGGGGAPPSGGGPPPNTPAGLPHN 477
G G G G G PPN PA + N
Sbjct: 290 GNMGNMGHGNMGMAGGSGMNPPNPPAFMGMN 320
>gnl|CDD|223990 COG1062, AdhC, Zn-dependent alcohol dehydrogenases, class III
[Energy production and conversion].
Length = 366
Score = 29.1 bits (66), Expect = 5.0
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 174 RGDTLGIVGLGRIGSAVALRAKAFGFNVIF 203
GDT+ + GLG +G A AKA G I
Sbjct: 185 PGDTVAVFGLGGVGLAAIQGAKAAGAGRII 214
>gnl|CDD|216868 pfam02084, Bindin, Bindin.
Length = 239
Score = 29.1 bits (65), Expect = 5.2
Identities = 19/39 (48%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 358 PSAGGGGLPAGLNYPHAPPGGPVSSGPPGGPPGPGVVPE 396
P GGGG AG P P GG G GGPPG G V
Sbjct: 39 PVGGGGGPGAGGGAPGGPVGGG--GGGSGGPPGGGEVAG 75
Score = 28.7 bits (64), Expect = 5.6
Identities = 15/51 (29%), Positives = 16/51 (31%), Gaps = 1/51 (1%)
Query: 438 APAPGSERGGGAPPSGSGGG-GAPPSGGGPPPNTPAGLPHNLPLSTADPSN 487
G GGG P GG G P GGG P G + S
Sbjct: 33 NQGMGGPVGGGGGPGAGGGAPGGPVGGGGGGSGGPPGGGEVAGEAEDAMSE 83
Score = 28.7 bits (64), Expect = 7.3
Identities = 25/101 (24%), Positives = 28/101 (27%), Gaps = 33/101 (32%)
Query: 370 NYPHA--PPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQA 427
NYP A P G + PG P G +G+ G
Sbjct: 6 NYPQAMNPQMGGGNYPAPGQPAQQGYANQGMGG--------------------------- 38
Query: 428 HSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPP 468
P P G GG G GG G PP GG
Sbjct: 39 ----PVGGGGGPGAGGGAPGGPVGGGGGGSGGPPGGGEVAG 75
>gnl|CDD|215603 PLN03145, PLN03145, Protein phosphatase 2c; Provisional.
Length = 365
Score = 29.1 bits (65), Expect = 5.4
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 442 GSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESS 496
++ G GS GGG PP+ P+ + H+ + T P++ + E +
Sbjct: 1 ETKGISGGGEGGSSGGGRPPNPSVAACCKPSLVRHSSLVKT--PASDISVENELT 53
>gnl|CDD|216949 pfam02254, TrkA_N, TrkA-N domain. This domain is found in a wide
variety of proteins. These protein include potassium
channels, phosphoesterases, and various other
transporters. This domain binds to NAD.
Length = 116
Score = 27.9 bits (63), Expect = 5.6
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 180 IVGLGRIGSAVALRAKAFGFNVI 202
I+G GR+G ++A + G +V+
Sbjct: 3 IIGYGRVGRSLAEELREGGPDVV 25
>gnl|CDD|191582 pfam06679, DUF1180, Protein of unknown function (DUF1180). This
family consists of several hypothetical mammalian
proteins of around 190 residues in length. The function
of this family is unknown.
Length = 163
Score = 28.3 bits (63), Expect = 5.7
Identities = 15/70 (21%), Positives = 22/70 (31%), Gaps = 1/70 (1%)
Query: 412 AAAAAAIGTLPPVQQAHSTTPHDSAIAPAPG-SERGGGAPPSGSGGGGAPPSGGGPPPNT 470
A AA + + P P + +GGGG+ S GG
Sbjct: 24 IAPAALASRAGSAASSQPGPETQPPLPPGPTPANPTALGSGDAAGGGGSSTSDGGALATR 83
Query: 471 PAGLPHNLPL 480
P+ L + P
Sbjct: 84 PSPLLRDKPT 93
>gnl|CDD|221480 pfam12238, MSA-2c, Merozoite surface antigen 2c. This family of
proteins is found in eukaryotes. Proteins in this family
are typically between 263 and 318 amino acids in length.
There is a conserved SFT sequence motif. MSA-2 is a
plasma membrane glycoprotein which can be found in
Babesia bovis species.
Length = 201
Score = 28.6 bits (64), Expect = 5.8
Identities = 14/51 (27%), Positives = 15/51 (29%), Gaps = 7/51 (13%)
Query: 449 APPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTADPSNHHPPKPESSEPG 499
S G PS G PNT A T P KP + G
Sbjct: 145 KHSSSQGTSTTRPSDGSATPNTSAP-------PTPGNPAAQPEKPAETPKG 188
>gnl|CDD|168796 PRK07066, PRK07066, 3-hydroxybutyryl-CoA dehydrogenase; Validated.
Length = 321
Score = 29.0 bits (65), Expect = 5.9
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 176 DTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSL 216
T +G G IGS RA A G +V+ +DP G E +L
Sbjct: 8 KTFAAIGSGVIGSGWVARALAHGLDVVAWDP--APGAEAAL 46
>gnl|CDD|184511 PRK14106, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
synthetase; Provisional.
Length = 450
Score = 29.2 bits (66), Expect = 5.9
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 180 IVGLGRIGSAVALRAKAFGFNVIFYD 205
+VG G G A+A K G VI D
Sbjct: 10 VVGAGVSGLALAKFLKKLGAKVILTD 35
>gnl|CDD|218181 pfam04621, ETS_PEA3_N, PEA3 subfamily ETS-domain transcription
factor N terminal domain. The N terminus of the PEA3
transcription factors is implicated in transactivation
and in inhibition of DNA binding. Transactivation is
potentiated by activation of the Ras/MAP kinase and
protein kinase A signalling cascades. The N terminal
region contains conserved MAP kinase phosphorylation
sites.
Length = 336
Score = 29.1 bits (65), Expect = 6.0
Identities = 15/52 (28%), Positives = 19/52 (36%), Gaps = 3/52 (5%)
Query: 450 PPSGSGGGGAPPSGGGPPPNTP---AGLPHNLPLSTADPSNHHPPKPESSEP 498
P+ PPS P N L + PLS + P + H P P S
Sbjct: 125 KPASGFKPPTPPSTPCSPVNPQETVRQLQPSGPLSNSSPPSPHTPLPNQSPL 176
>gnl|CDD|177646 PHA03418, PHA03418, hypothetical E4 protein; Provisional.
Length = 230
Score = 28.6 bits (63), Expect = 6.2
Identities = 39/142 (27%), Positives = 49/142 (34%), Gaps = 16/142 (11%)
Query: 370 NYPHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQA-- 427
P PP P++ PP P G P G + A AA A P +++
Sbjct: 50 KNPSPPPDPPLTPRPPAQPNGHNKPPVTKQPGGEGTEEDHQAPLAADADDDPRPGKRSKA 109
Query: 428 --HSTTPHDSAIAP-----APGSERGGGAPPSGSGGG-GAPPSGGGPPPNTPAGLPHNLP 479
H P +A+AP G PP G+ GG G P GG P G
Sbjct: 110 DEHGPAPGRAALAPFKLDLDQDPLHGDPDPPPGATGGQGEEPPEGGEESQPPLGE----- 164
Query: 480 LSTADPSNHHPPKPESSEPGVH 501
H PP P + EP H
Sbjct: 165 -GEGAVEGHPPPLPPAPEPKPH 185
>gnl|CDD|215618 PLN03184, PLN03184, chloroplast Hsp70; Provisional.
Length = 673
Score = 29.0 bits (65), Expect = 6.3
Identities = 7/24 (29%), Positives = 9/24 (37%)
Query: 446 GGGAPPSGSGGGGAPPSGGGPPPN 469
GG P G G + S G +
Sbjct: 641 GGAGPAPGGEAGSSSSSSSGGDGD 664
Score = 28.7 bits (64), Expect = 9.6
Identities = 8/29 (27%), Positives = 10/29 (34%)
Query: 433 HDSAIAPAPGSERGGGAPPSGSGGGGAPP 461
++ A G GG A S S G
Sbjct: 635 YNQPGAGGAGPAPGGEAGSSSSSSSGGDG 663
>gnl|CDD|237871 PRK14965, PRK14965, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 576
Score = 28.9 bits (65), Expect = 6.7
Identities = 22/84 (26%), Positives = 28/84 (33%), Gaps = 6/84 (7%)
Query: 403 SSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPS 462
S L+ R A A PP + TP A AP P + P + + A P+
Sbjct: 368 SELLDRLEALERGA---PAPPSAAWGAPTPAAPA-APPPAAAPPVP-PAAPARPAAARPA 422
Query: 463 GGGPPPNTPAGLPHNLPLSTADPS 486
P P A P A S
Sbjct: 423 -PAPAPPAAAAPPARSADPAAAAS 445
>gnl|CDD|152960 pfam12526, DUF3729, Protein of unknown function (DUF3729). This
family of proteins is found in viruses. Proteins in this
family are typically between 145 and 1707 amino acids in
length. The family is found in association with
pfam01443, pfam01661, pfam05417, pfam01660, pfam00978.
There is a single completely conserved residue L that
may be functionally important.
Length = 115
Score = 27.7 bits (62), Expect = 6.8
Identities = 25/102 (24%), Positives = 27/102 (26%), Gaps = 25/102 (24%)
Query: 372 PHAPPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTT 431
P PP G P P VV T PPV
Sbjct: 29 FSPPESAHPDDPPPVGDPRPPVV------------------------DTPPPVSAVWVLP 64
Query: 432 PHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
P AP P E P+G APP+ PP P
Sbjct: 65 PPSEPAAPPPDPE-PPVPGPAGPPSPLAPPAPARKPPLPPPR 105
>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein;
Provisional.
Length = 182
Score = 28.2 bits (63), Expect = 7.0
Identities = 15/32 (46%), Positives = 16/32 (50%)
Query: 442 GSERGGGAPPSGSGGGGAPPSGGGPPPNTPAG 473
G R GG SGGGG GG P+ PAG
Sbjct: 139 GESRSGGGGGRASGGGGGGAGGGASRPSAPAG 170
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 28.8 bits (65), Expect = 7.3
Identities = 15/74 (20%), Positives = 22/74 (29%)
Query: 425 QQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLPHNLPLSTAD 484
+ + + + P P AP A PPP P +
Sbjct: 511 ESQSGSASNTAKTPPPPQKSPPPPAPTPPLPQPTATAPPPTPPPPPPTATQASSNAPAQI 570
Query: 485 PSNHHPPKPESSEP 498
P++ PP P EP
Sbjct: 571 PADSSPPPPIPEEP 584
>gnl|CDD|239779 cd04246, AAK_AK-DapG-like, AAK_AK-DapG-like: Amino Acid Kinase
Superfamily (AAK), AK-DapG-like; this CD includes the
N-terminal catalytic aspartokinase (AK) domain of the
diaminopimelate-sensitive aspartokinase isoenzyme AKI
(DapG), a monofunctional enzymes found in Bacilli
(Bacillus subtilis 168), Clostridia, and Actinobacteria
bacterial species, as well as, the catalytic AK domain
of the lysine-sensitive aspartokinase isoenzyme AKII of
Bacillus subtilis 168, the lysine plus
threonine-sensitive aspartokinase of Corynebacterium
glutamicum, and related isoenzymes. In Bacillus
subtilis, the regulation of the diaminopimelate-lysine
biosynthetic pathway involves dual control by
diaminopimelate and lysine, effected through separate
diaminopimelate- and lysine-sensitive aspartokinase
isoenzymes. The role of the AKI isoenzyme is most likely
to provide a constant level of aspartyl-beta-phosphate
for the biosynthesis of diaminopimelate for
peptidoglycan synthesis and dipicolinate during
sporulation. The B. subtilis 168 AKII is induced by
methionine, and repressed and inhibited by lysine. In
Corynebacterium glutamicum and other various
Gram-positive bacteria, the DAP-lysine pathway is
feedback regulated by the concerted action of lysine and
threonine. Also included in this CD are the
aspartokinases of the extreme thermophile, Thermus
thermophilus HB27, the Gram-negative obligate
methylotroph, Methylophilus methylotrophus AS1, and
those single aspartokinase isoenzyme types found in
Pseudomonas, C. glutamicum, and Amycolatopsis
lactamdurans. The B. subtilis AKI is tetrameric
consisting of two alpha and two beta subunits; the alpha
(43 kD) and beta (17 kD) subunit formed by two in-phase
overlapping genes. The alpha subunit contains the AK
catalytic domain and two ACT domains. The beta subunit
contains two ACT domains. The B. subtilis 168 AKII
aspartokinase is also described as tetrameric consisting
of two alpha and two beta subunits. Some archeal
aspartokinases in this group lack recognizable ACT
domains.
Length = 239
Score = 28.6 bits (65), Expect = 7.3
Identities = 23/68 (33%), Positives = 27/68 (39%), Gaps = 11/68 (16%)
Query: 267 RGGLVDDDSLAAALKQGRIRAAALDVHESEPYNVFQGNLKDAPNILCTPHAAFYSEASCT 326
RGG D+ A AL AAAL E Y G P I+ P A S
Sbjct: 148 RGG---SDTTAVAL------AAALKADRCEIYTDVDGVYTADPRIV--PKARKLDVISYD 196
Query: 327 ELREMAAS 334
E+ EMA+
Sbjct: 197 EMLEMASL 204
>gnl|CDD|213953 TIGR04340, rSAM_ACGX, radical SAM/SPASM domain protein, ACGX
system. Members of this protein family are radical
SAM/SPASM domain proteins likely to be involved in the
modification of small, Cys-rich peptides. Members of the
family of proposed target sequences, TIGR04341, average
75 amino acids in length and average six instances of
the motif ACGX, where X is A, S, or T.
Length = 341
Score = 28.6 bits (64), Expect = 7.9
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 297 PYNVFQGNLKDAPNILCTPHAAFYSEASCTELREMAASEIRRAIVGRIPDCLRNCVNKEY 356
PY FQ ++ D + C H YS S E+ M+ +++ + I D R + Y
Sbjct: 1 PYFSFQWHITDDCDQRCK-HCYIYSGGSNAEVNRMSFEQMQDTL-DNIEDFCRKFGREPY 58
Query: 357 FPSAGG 362
GG
Sbjct: 59 LYITGG 64
>gnl|CDD|226808 COG4371, COG4371, Predicted membrane protein [Function unknown].
Length = 334
Score = 28.7 bits (64), Expect = 8.1
Identities = 13/45 (28%), Positives = 16/45 (35%), Gaps = 2/45 (4%)
Query: 359 SAGGGGLPAGLNYPHAPPGGPVSSG--PPGGPPGPGVVPEGINGG 401
S + P GG S G GG P ++P G GG
Sbjct: 57 SFRAPSGYSRGYSGGGPSGGGYSGGGYSGGGFGFPFIIPGGGGGG 101
>gnl|CDD|178748 PLN03209, PLN03209, translocon at the inner envelope of chloroplast
subunit 62; Provisional.
Length = 576
Score = 28.7 bits (64), Expect = 8.5
Identities = 22/148 (14%), Positives = 40/148 (27%), Gaps = 22/148 (14%)
Query: 375 PPGGPVSSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLP-PVQQAHSTTPH 433
PP P+ + P P V +V +A+ + ++ +P+
Sbjct: 382 PPTSPIPTPPSSSPASSKSVDAVAKPAEPDVVPSPGSASNVPEVEPAQVEAKKTRPLSPY 441
Query: 434 ---------------------DSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGPPPNTPA 472
S + + AP + + APP P + A
Sbjct: 442 ARYEDLKPPTSPSPTAPTGVSPSVSSTSSVPAVPDTAPATAATDAAAPPPANMRPLSPYA 501
Query: 473 GLPHNLPLSTADPSNHHPPKPESSEPGV 500
P ++ P+ SS V
Sbjct: 502 VYDDLKPPTSPSPAAPVGKVAPSSTNEV 529
>gnl|CDD|216180 pfam00899, ThiF, ThiF family. This family contains a repeated
domain in ubiquitin activating enzyme E1 and members of
the bacterial ThiF/MoeB/HesA family.
Length = 134
Score = 27.5 bits (62), Expect = 8.6
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 180 IVGLGRIGSAVALRAKAFGF-NVIFYDPYLPDGIEKS 215
+VG G +GS A G + D D +E S
Sbjct: 6 VVGAGGLGSPAAEYLARAGVGKLTLVD---FDTVELS 39
>gnl|CDD|224631 COG1717, RPL32, Ribosomal protein L32E [Translation, ribosomal
structure and biogenesis].
Length = 133
Score = 27.7 bits (62), Expect = 8.7
Identities = 20/48 (41%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 85 EDLEKFKTLRIIVRIGSGVD-----NIDVKAAGELGIAVCNVPGYGVE 127
+DLEK RI S V I ++ A ELGI V N PG VE
Sbjct: 88 KDLEKLDPETQAARIASTVGARKRIEI-LERARELGIKVLN-PGGRVE 133
>gnl|CDD|223749 COG0677, WecC, UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell
envelope biogenesis, outer membrane].
Length = 436
Score = 28.4 bits (64), Expect = 8.8
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYD 205
T+G++GLG +G +A + GF VI D
Sbjct: 11 TIGVIGLGYVGLPLAAAFASAGFKVIGVD 39
>gnl|CDD|185616 PTZ00436, PTZ00436, 60S ribosomal protein L19-like protein;
Provisional.
Length = 357
Score = 28.4 bits (62), Expect = 8.8
Identities = 22/95 (23%), Positives = 31/95 (32%), Gaps = 3/95 (3%)
Query: 381 SSGPPGGPPGPGVVPEGINGGSSSLVSRYYAAAAAAAIGTLPPVQQAHSTTPHDSAIAPA 440
++ P G P + + AAAA A P + A + A A
Sbjct: 208 AAAPSGKKSAKAAAPAKAAAAPAKAAAPPAKAAAAPAKAAAAPAKAAAPPAKAAAPPAKA 267
Query: 441 PGSERGGGAPPSGSGGGGAPPSGGGPPPNTPAGLP 475
APP+ + APP+ PP A P
Sbjct: 268 AAPPAKAAAPPAKA---AAPPAKAAAPPAKAAAAP 299
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase (decarboxylating).
This model does not specify whether the cofactor is
NADP only (EC 1.1.1.44), NAD only, or both. The model
does not assign an EC number for that reason [Energy
metabolism, Pentose phosphate pathway].
Length = 467
Score = 28.5 bits (64), Expect = 9.3
Identities = 14/59 (23%), Positives = 29/59 (49%), Gaps = 8/59 (13%)
Query: 177 TLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIEKSLG-------LTRVYTLQDLL 228
+G++GL +GS +AL GF V Y+ P+ ++ L + Y++++ +
Sbjct: 1 DIGVIGLAVMGSNLALNMADHGFTVSVYN-RTPEKTDEFLAEHAKGKKIVGAYSIEEFV 58
>gnl|CDD|237082 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
Length = 400
Score = 28.6 bits (64), Expect = 9.4
Identities = 17/78 (21%), Positives = 23/78 (29%), Gaps = 3/78 (3%)
Query: 411 AAAAAAAIGTLPPVQQAHSTTPHDSAIAPAPGSERGGGAPPSGSGGGGAPPSGGGP---P 467
+ AA + A TP + A A ++ P SG+ P
Sbjct: 242 PPSEAARPKSADAETNAALKTPATAPKAAAKNAKAPEAQPVSGTAAAEPAPKEAAKAAAA 301
Query: 468 PNTPAGLPHNLPLSTADP 485
PA PL A P
Sbjct: 302 AAKPALEDKPRPLGIARP 319
>gnl|CDD|221526 pfam12316, Dsh_C, Segment polarity protein dishevelled (Dsh) C
terminal. This domain family is found in eukaryotes,
and is typically between 177 and 207 amino acids in
length. The family is found in association with
pfam00778, pfam02377, pfam00610, pfam00595. The segment
polarity gene dishevelled (dsh) is required for pattern
formation of the embryonic segments. It is involved in
the determination of body organisation through the
Wingless pathway (analogous to the Wnt-1 pathway).
Length = 202
Score = 28.0 bits (62), Expect = 9.4
Identities = 14/34 (41%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 358 PSAGGGGLPAGLNYPHAPP-GGPVSSGPPGGPPG 390
S G G+P N P P S GPPG PP
Sbjct: 147 SSYGAPGVPPPYNPPMLMMKPPPPSPGPPGAPPV 180
>gnl|CDD|176201 cd08239, THR_DH_like, L-threonine dehydrogenase (TDH)-like.
MDR/AHD-like proteins, including a protein annotated as
a threonine dehydrogenase. L-threonine dehydrogenase
(TDH) catalyzes the zinc-dependent formation of
2-amino-3-ketobutyrate from L-threonine via
NAD(H)-dependent oxidation. The zinc-dependent alcohol
dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent
interconversion of alcohols to aldehydes or ketones.
Zinc-dependent ADHs are medium chain
dehydrogenase/reductase type proteins (MDRs) and have a
NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. In addition to alcohol
dehydrogenases, this group includes quinone reductase,
sorbitol dehydrogenase, formaldehyde dehydrogenase,
butanediol DH, ketose reductase, cinnamyl reductase, and
numerous others. These proteins typically form dimers
(typically higher plants, mammals) or tetramers (yeast,
bacteria), and generally have 2 tightly bound zinc atoms
per subunit. The active site zinc is coordinated by a
histidine, two cysteines, and a water molecule. The
second zinc seems to play a structural role, affects
subunit interactions, and is typically coordinated by 4
cysteines.
Length = 339
Score = 28.4 bits (64), Expect = 9.5
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 2/59 (3%)
Query: 175 GDTLGIVGLGRIGSAVALRAKAFGFNVIFYDPYLPDGIE--KSLGLTRVYTLQDLLFQS 231
DT+ +VG G +G + A+A G + P+ +E K+LG V Q
Sbjct: 164 RDTVLVVGAGPVGLGALMLARALGAEDVIGVDPSPERLELAKALGADFVINSGQDDVQE 222
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
0.317 0.137 0.417
Gapped
Lambda K H
0.267 0.0630 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,849,996
Number of extensions: 2757864
Number of successful extensions: 5687
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4530
Number of HSP's successfully gapped: 453
Length of query: 501
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 400
Effective length of database: 6,457,848
Effective search space: 2583139200
Effective search space used: 2583139200
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: 61 (27.5 bits)