RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780307|ref|YP_003064720.1| aspartate-semialdehyde
dehydrogenase [Candidatus Liberibacter asiaticus str. psy62]
(335 letters)
>gnl|CDD|30485 COG0136, Asd, Aspartate-semialdehyde dehydrogenase [Amino acid
transport and metabolism].
Length = 334
Score = 382 bits (982), Expect = e-107
Identities = 182/337 (54%), Positives = 230/337 (68%), Gaps = 9/337 (2%)
Query: 2 TFKVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVP-FGKETIDVQD--VK 58
VAV+GATG VG+ +L ++ ER FP E+V LAS RSAG K FG ++I V +
Sbjct: 1 KLNVAVLGATGAVGQVLLELLEERHFPFEELVLLASARSAGKKYIEFGGKSIGVPEDAAD 60
Query: 59 SYDFSDTDICLMSAGHAVSSQMSPKIAANGCIVIDNSSAWRYDSDVPLIVPEVNPQTISL 118
+ FSD DI +AG +VS ++ PK A GC+VIDNSSA+R D DVPL+VPEVNP+ +
Sbjct: 61 EFVFSDVDIVFFAAGGSVSKEVEPKAAEAGCVVIDNSSAFRMDPDVPLVVPEVNPEHLID 120
Query: 119 ASRKN-IIANPNCSTIQLVVALKPLHDLAMIKRVVVTTYQSVSGAGKKGIDELLAQTKAF 177
++ IIANPNCSTIQLV+ALKPLHD IKRVVV+TYQ+VSGAG +G EL QT A
Sbjct: 121 YQKRGFIIANPNCSTIQLVLALKPLHDAFGIKRVVVSTYQAVSGAGAEGGVELAGQTDAL 180
Query: 178 LAKKTIENRVFTKNIAFNVIPHIDVFMDGGSTKEEWKVLVETQKIL-DPNIKVSCTAARV 236
L I +AFNVIPHID F+D G TKEEWK+ ET+KIL DP+IKVS T RV
Sbjct: 181 LNGIPILPI--GYPLAFNVIPHIDGFLDNGYTKEEWKIEAETRKILGDPDIKVSATCVRV 238
Query: 237 PVFIGHAESVNIEFEKDISIKDAVAAINKS-KGCIVVDKPDKNEYITPVESIRRDLVFVS 295
PVF GH+E+V +EF+KD+ ++ + S G +VVD P+ + TP+++ D V V
Sbjct: 239 PVFYGHSEAVTVEFKKDVDPEEIREELLPSAPGVVVVDNPE-DRPQTPLDATGGDEVSVG 297
Query: 296 RIRKDPTLKSGLNLWIVANNLRKGAALNAVQIAELVA 332
RIRKD + GL LW+V +NLRKGAALNAV IAEL+
Sbjct: 298 RIRKDLSGPEGLKLWVVGDNLRKGAALNAVLIAELLL 334
>gnl|CDD|39974 KOG4777, KOG4777, KOG4777, Aspartate-semialdehyde dehydrogenase
[Amino acid transport and metabolism].
Length = 361
Score = 168 bits (426), Expect = 2e-42
Identities = 107/355 (30%), Positives = 161/355 (45%), Gaps = 33/355 (9%)
Query: 7 VVGATGNVGREMLNIICERGFPISEVVAL-ASERSAGTKV------------PFGKETID 53
V+GATG VG+ ++++ + P + L AS+RSAG + P
Sbjct: 9 VLGATGAVGQRFISLLSDH--PYFSIKVLGASKRSAGKRYAFAGNWKQTDLLPESAHEYT 66
Query: 54 VQDVKSYDFSDTDICLMSAGHAVSSQMSPKIAANGCIVIDNSSAWRYDSDVPLIVPEVNP 113
V++ + F++ DI ++ ++ A G I++ N+ +R + VPL+VPEVNP
Sbjct: 67 VEECTADSFNECDIVFSGLDADIAGEIEKLFAEAGTIIVSNAKNYRREDGVPLVVPEVNP 126
Query: 114 QTISLASRKN---------IIANPNCSTIQLVVALKPLHDLAM-IKRVVVTTYQSVSGAG 163
+ + IIAN NCST V+ LKPLH IKR+VV+TYQ++SGAG
Sbjct: 127 EHLDGIKVGLDTGKMGKGAIIANSNCSTAICVMPLKPLHHHFGPIKRMVVSTYQAISGAG 186
Query: 164 KKGIDELLAQTKAFLAKKTIENRVFTKNIAFNVIPHIDVFMDGGSTKEEWKVLVETQKIL 223
EL+ L E F A + H +D G +EE + I+
Sbjct: 187 AAPGVELVDILDNILPGIGGEENKFEWETAKILFSHNAPILDNGLNEEEMVSAQCNRVIV 246
Query: 224 -DPNIKVSCTAARVPVFIGHAESVNIEFEKDISIKDAVAAINKSKGCIVVDKPDKNEYIT 282
D ++K T RVPV HA+ VN+ FE + ++ + I+ K I V +
Sbjct: 247 NDGHVKCISTCFRVPVMPAHAQVVNLLFE-YVLDENKLGCISAPKQGIYVIDDRAPDRPQ 305
Query: 283 PVESIRRD---LVFVSRIRKDPTLK---SGLNLWIVANNLRKGAALNAVQIAELV 331
P +D V V RIR+D + L+ KGA L VQIAE++
Sbjct: 306 PRLDRNKDDGYGVSVGRIRRDVSQDGKFVVLDHNTCGGAAGKGALLAEVQIAEML 360
>gnl|CDD|145758 pfam02774, Semialdhyde_dhC, Semialdehyde dehydrogenase,
dimerization domain. This Pfam entry contains the
following members: N-acetyl-glutamine semialdehyde
dehydrogenase (AgrC) Aspartate-semialdehyde
dehydrogenase.
Length = 167
Score = 138 bits (351), Expect = 1e-33
Identities = 75/185 (40%), Positives = 102/185 (55%), Gaps = 23/185 (12%)
Query: 139 LKPLHD-LAMIKRVVVTTYQSVSGAGKKGIDELLAQTKAFLAKKTIENRVFTKNIAFNVI 197
LKPL D L ++RV+V TYQ+VSGAGKK + VF IA N+I
Sbjct: 1 LKPLRDALGGLERVIVDTYQAVSGAGKK-----------------AKPGVFGAPIADNLI 43
Query: 198 PHIDVFMDGGS--TKEEWKVLVETQKILDPNIKVSCTAARVPVFIGHAESVNIEFE-KDI 254
P+ID G+ T+EE K++ ET+KIL KVS T RVPVF GH+E+V ++ + K I
Sbjct: 44 PYIDGEEHNGTPETREELKMVNETKKILGFTPKVSATCVRVPVFRGHSETVTVKLKLKPI 103
Query: 255 SIKDAVAAINKSKGCIVVDKPDKNEYITPVESI-RRDLVFVSRIRKDPTLKSGLNLWIVA 313
+++ A + G VV + +Y TP + V+V R+RKDP GL L V
Sbjct: 104 DVEEVYEAFYAAPGVFVVV-RPEEDYPTPRAVRGGTNFVYVGRVRKDPDGDRGLKLVSVI 162
Query: 314 NNLRK 318
+NLRK
Sbjct: 163 DNLRK 167
>gnl|CDD|144637 pfam01118, Semialdhyde_dh, Semialdehyde dehydrogenase, NAD binding
domain. This Pfam entry contains the following members:
N-acetyl-glutamine semialdehyde dehydrogenase (AgrC)
Aspartate-semialdehyde dehydrogenase.
Length = 121
Score = 131 bits (333), Expect = 2e-31
Identities = 53/122 (43%), Positives = 73/122 (59%), Gaps = 7/122 (5%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVPF------GKETIDVQDV 57
KVA+VGATG VG+E+L ++ E P+ V +AS RSAG KV F G + ++DV
Sbjct: 1 KVAIVGATGYVGQELLRLLAEH-PPLELVALVASSRSAGKKVAFAGPWLTGGVDLLLEDV 59
Query: 58 KSYDFSDTDICLMSAGHAVSSQMSPKIAANGCIVIDNSSAWRYDSDVPLIVPEVNPQTIS 117
D D DI + VS +++PK+ G +VID SSA+R D DVP ++PEVN + I
Sbjct: 60 DPEDLKDVDIVFFALPAGVSKELAPKLLEAGAVVIDLSSAFRMDDDVPYVLPEVNREAIK 119
Query: 118 LA 119
A
Sbjct: 120 KA 121
>gnl|CDD|30351 COG0002, ArgC, Acetylglutamate semialdehyde dehydrogenase [Amino
acid transport and metabolism].
Length = 349
Score = 91.5 bits (227), Expect = 3e-19
Identities = 70/360 (19%), Positives = 130/360 (36%), Gaps = 66/360 (18%)
Query: 1 MTFKVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVP--------FGKETI 52
M KV +VGA+G G E+L ++ P E++ ++S AG V
Sbjct: 1 MMIKVGIVGASGYTGLELLRLLAGH--PDVELILISSRERAGKPVSDVHPNLRGLVDLPF 58
Query: 53 DVQDVKSYDFSDTDICLMSAGHAVSSQMSPKIAANGCIVIDNSSAWRYDS---------- 102
D + + + D+ ++ H VS+++ P++ GC VID S+ +R
Sbjct: 59 QTIDPEKIELDECDVVFLALPHGVSAELVPELLEAGCKVIDLSADFRLKDPEVYEKWYGF 118
Query: 103 ---DVPLIV------PEVNPQTISLASRKNIIANPNCSTIQLVVALKPLHDLAMI---KR 150
L+ PE++ + I A IANP C ++AL PL ++
Sbjct: 119 THAGPELLEDAVYGLPELHREKIRGAKL---IANPGCYPTAAILALAPLVKAGLLDPDSP 175
Query: 151 VVVTTYQSVSGAGKKGIDELLAQTKAFLAKKTIENRVFTKNIAFNVIPHIDVFMDGGSTK 210
+V VSGAG+K + ++ + + H +
Sbjct: 176 PIVDAKSGVSGAGRKASV-------KNHFPEVNDS-----LRPYGLTGH----------R 213
Query: 211 EEWKVLVETQKILDPNIKVSCTAARVPVFIGHAESVNIEFEKDISIKDAVAAINKS-KGC 269
++ ++ + V T P G ++ ++ + +++++ AA + G
Sbjct: 214 HTPEIEQHLGRLAGRKVPVIFTPHLGPFVRGILATIYLKLKDLVTLEELHAAYEEFYAGE 273
Query: 270 IVVDKPDKNEYITPVESIRRDLVFVSRIRKDPTLKSGLNLWIVA---NNLRKGAALNAVQ 326
V + Y + + + +V +NL KGAA AVQ
Sbjct: 274 PFVRVVPEGGYPDTKAVAGSNFCDIG-----FAVDERTGRVVVVSAIDNLVKGAAGQAVQ 328
>gnl|CDD|39555 KOG4354, KOG4354, KOG4354, N-acetyl-gamma-glutamyl-phosphate
reductase [Amino acid transport and metabolism].
Length = 340
Score = 50.0 bits (119), Expect = 8e-07
Identities = 45/177 (25%), Positives = 74/177 (41%), Gaps = 24/177 (13%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVPFGKETIDVQDVKSYDFS 63
+V ++GA G G+ ++ +I P EV ++S AG K+ +++Q D S
Sbjct: 21 RVGLLGARGYTGKNLVRLI--NNHPYLEVTHVSSRELAGQKLE-VYTKLEIQYA---DLS 74
Query: 64 DTDICLMSAGHAV------------SSQMSPKIAANG-CIVIDNSSAWRY--DSDVPLIV 108
D + HAV +S +++G +ID S+ WR+ + +
Sbjct: 75 TVDAVKLEEPHAVDHWVMALPNQVCKPFVSLTESSDGKSRIIDLSADWRFQPHKEWVYGL 134
Query: 109 PEVNPQTISLASRKNIIANPNCSTIQLVVALKPLHDLAMIKRVVVTTYQSVSGAGKK 165
PE+N + +R IANP C + L PL + K + SGAG K
Sbjct: 135 PELNDREDIKNARL--IANPGCYATGSQLPLVPLLKAILGKPEIFGV-SGYSGAGTK 188
>gnl|CDD|30406 COG0057, GapA, Glyceraldehyde-3-phosphate
dehydrogenase/erythrose-4-phosphate dehydrogenase
[Carbohydrate transport and metabolism].
Length = 335
Score = 42.1 bits (99), Expect = 3e-04
Identities = 64/297 (21%), Positives = 106/297 (35%), Gaps = 67/297 (22%)
Query: 2 TFKVAVVGATGNVGREMLNIICERGFPISEVVA------------LASERSA-------- 41
KVA+ G G +GR + ER I EVVA L S
Sbjct: 1 MIKVAING-FGRIGRLVARAALERDGDI-EVVAINDLTDPDYLAHLLKYDSVHGRFDGEV 58
Query: 42 ---GTKVPFGKETIDVQ---DVKSYDFSD--TDICLMSAGHAVSSQMSPKIAANGC---I 90
+ + I V D + ++D DI + G + + K G +
Sbjct: 59 EVKDDALVVNGKGIKVLAERDPANLPWADLGVDIVVECTGKFTGREKAEKHLKAGGAKKV 118
Query: 91 VIDNSSAWRYDSDVPLIVPEVNPQTISLASRKNIIANPNCSTIQLVVALKPLHDLAMIKR 150
+I DV +V VN + I++N +C+T L K L+D I++
Sbjct: 119 LISAPGK----DDVATVVYGVNHNY--YDAGHTIVSNASCTTNCLAPVAKVLNDAFGIEK 172
Query: 151 VVVTTYQSVSGAG--KKGIDELLAQTKAFLAKKTIENRVFTKNIAFNVIPHIDVFMDGGS 208
++TT + + G + L + +A A N+IP G+
Sbjct: 173 GLMTTVHAYTNDQKLVDGPHKDLRRARA---------------AALNIIPT-----STGA 212
Query: 209 TKEEWKVLVETQKILDPNIKVSCTAARVPVFIGHAESVNIEFEKDISIKDAVAAINK 265
K VL E K++ A RVP + +E EK++++++ AA+
Sbjct: 213 AKAVGLVLPEL------KGKLTGMAIRVPTPNVSVVDLTVELEKEVTVEEINAALKA 263
>gnl|CDD|36417 KOG1203, KOG1203, KOG1203, Predicted dehydrogenase [Carbohydrate
transport and metabolism].
Length = 411
Score = 32.7 bits (74), Expect = 0.16
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 8/67 (11%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVPFGKETID---VQDVKSY 60
V VVGATG VGR ++ I+ +RGF + +V R +Q+V++
Sbjct: 81 TVLVVGATGKVGRRIVKILLKRGFSVRALV-----RDEQKAEDLLGVFFVDLGLQNVEAD 135
Query: 61 DFSDTDI 67
+ DI
Sbjct: 136 VVTAIDI 142
>gnl|CDD|34207 COG4569, MhpF, Acetaldehyde dehydrogenase (acetylating) [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 310
Score = 31.6 bits (71), Expect = 0.32
Identities = 39/178 (21%), Positives = 74/178 (41%), Gaps = 13/178 (7%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASE-------RSAGTKVPFGKETIDVQD 56
KVA++G +GN+G +++ I G + V + + R+A V E +
Sbjct: 6 KVAIIG-SGNIGTDLMIKILRHGQHLEMAVMVGIDPQSDGLARAARLGVATTHEGVIGL- 63
Query: 57 VKSYDFSDTDICLMSAGHAVSSQMSPKIAANGCIVIDNSSAWRYDSDVPLIVPEVNPQTI 116
+ +F+D D+ + + + +A G +ID + A + P +VP VN +
Sbjct: 64 LNMPEFADIDLVFDATSAGAHVKNAAALAEAGIRLIDLTPA----AIGPYVVPVVNLEEH 119
Query: 117 SLASRKNIIANPNCSTIQLVVALKPLHDLAMIKRVVVTTYQSVSGAGKKGIDELLAQT 174
A N++ +TI +V A+ + + + V +S + IDE T
Sbjct: 120 VDALNVNMVTCGGQATIPIVAAVSRVVRVHYAEIVASIASKSAGPGTRANIDEFTETT 177
>gnl|CDD|39242 KOG4039, KOG4039, KOG4039, Serine/threonine kinase TIP30/CC3
[Signal transduction mechanisms].
Length = 238
Score = 31.6 bits (71), Expect = 0.36
Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 7/60 (11%)
Query: 7 VVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVPFGKETIDVQDVKSYDFSDTD 66
V+GATG G +L E S+V A+ + T V DFS
Sbjct: 23 VLGATGLCGGGLLKHAQEAPQ-FSKVYAI------LRRELPDPATDKVVAQVEVDFSKLS 75
>gnl|CDD|176209 cd08247, AST1_like, AST1 is a cytoplasmic protein associated with
the periplasmic membrane in yeast. This group contains
members identified in targeting of yeast membrane
proteins ATPase. AST1 is a cytoplasmic protein
associated with the periplasmic membrane in yeast,
identified as a multicopy suppressor of pma1 mutants
which cause temperature sensitive growth arrest due to
the inability of ATPase to target to the cell surface.
This family is homologous to the medium chain family of
dehydrogenases and reductases. Medium chain
dehydrogenases/reductase (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 an
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 352
Score = 30.7 bits (70), Expect = 0.54
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSA 41
KV V+G + +VGR + + + I VV S RSA
Sbjct: 154 KVLVLGGSTSVGR-FAIQLAKNHYNIGTVVGTCSSRSA 190
>gnl|CDD|32734 COG2910, COG2910, Putative NADH-flavin reductase [General
function prediction only].
Length = 211
Score = 30.6 bits (69), Expect = 0.68
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKVPFGKETIDVQDV 57
K+A++GA+G G +L +RG EV A+ R+A TI +D+
Sbjct: 2 KIAIIGASGKAGSRILKEALKRGH---EVTAIV--RNASKLAARQGVTILQKDI 50
>gnl|CDD|36950 KOG1739, KOG1739, KOG1739, Serine/threonine protein kinase GPBP
[Signal transduction mechanisms, Defense mechanisms].
Length = 611
Score = 30.1 bits (67), Expect = 1.0
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 289 RDLVFVSRIRKDPTLK-SGLNLWIVANN 315
RD++F+S IRK P L +G + WIV N
Sbjct: 491 RDVLFLSHIRKIPALTENGADTWIVCNF 518
>gnl|CDD|176249 cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases.
yhfp putative quinone oxidoreductases (QOR). QOR
catalyzes the conversion of a quinone + NAD(P)H to a
hydroquinone + NAD(P)+. Quinones are cyclic diones
derived from aromatic compounds. Membrane bound QOR
actin the respiratory chains of bacteria and
mitochondria, while soluble QOR acts to protect from
toxic quinones (e.g. DT-diaphorase) or as a soluble
eye-lens protein in some vertebrates (e.g.
zeta-crystalin). QOR reduces quinones through a
semi-quinone intermediate via a NAD(P)H-dependent single
electron transfer. QOR is a member of the medium chain
dehydrogenase/reductase family, but lacks the
zinc-binding sites of the prototypical alcohol
dehydrogenases of this group. 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 has 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 = 326
Score = 29.2 bits (66), Expect = 1.5
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSA 41
V V GATG VG ++I+ + G+ EVVA + A
Sbjct: 149 PVLVTGATGGVGSLAVSILAKLGY---EVVASTGKADA 183
>gnl|CDD|35346 KOG0124, KOG0124, KOG0124, Polypyrimidine tract-binding protein
PUF60 (RRM superfamily) [RNA processing and
modification].
Length = 544
Score = 29.3 bits (65), Expect = 1.7
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 229 VSCTAARVPVFIGHAESVNIEFEKDISIKDAVAAIN 264
V C AR P GH IE+ S +A+A++N
Sbjct: 238 VKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMN 273
>gnl|CDD|176881 cd08872, START_STARD11-like, Ceramide-binding START domain of
mammalian STARD11 and related domains. This subfamily
includes the steroidogenic acute regulatory protein
(StAR)-related lipid transfer (START) domains of
mammalian STARD11 and related domains. The START domain
family belongs to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. STARD11 can mediate transfer of the natural
ceramide isomers, dihydroceramide and phytoceramide, as
well as ceramides having C14, C16, C18, and C20 chains.
They can also transfer diacylglycerol, but with a lower
efficiency. STARD11 is synthesized from two major
transcripts: a larger one encoding Goodpasture
antigen-binding protein (GPBP)/ceramide transporter long
form (CERTL); and a smaller one encoding
GPBPdelta26/CERT, which is deleted for 26 amino acids.
Both splicing variants mediate ceramide transfer from
the ER to the Golgi, in a non-vesicular manner. It is
likely that these two carry out different functions in
specific sub-cellular locations. These proteins have
roles in brain homeostasis and disease processes.
GPBP/CERTL exists in multiple isoforms originating from
alternative translation initiation sites and
post-translational modifications. Goodpasture syndrome
is a human disorder caused by antibodies directed
against the a3-chain of collagen type IV. GPBP/CERTL
binds and phosphorylates this antigen. The human gene
encoding STARD11 is referred to as COL4A3BP referring to
its collagen binding function. It is unknown whether the
ceramide-transfer function of GPBP/CERTL is related to
this collagen interaction. The expression of GPBP/CERTL
is elevated in these and other spontaneous autoimmune
disorders including cutaneous lupus erythematosus,
pemphigoid, and lichen planus. GPBL/CERTL contains an
N-terminal pleckstrin homology domain (PH), which
targets the protein to the Golgi, a middle region
containing two serine-rich domains (SR1, SR2), a FFAT
(two phenylalanine amino acids in an acidic tract) motif
which is involved in endoplasmic reticulum targeting,
and this C-terminal SMART domain. The shorter splicing
variant, CERT, lacks the SR2 domain.
Length = 235
Score = 28.8 bits (65), Expect = 2.0
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 289 RDLVFVSRIRK--DPTLKSGLNLWIVANN 315
RD +FVS IRK + + WIV N
Sbjct: 114 RDALFVSHIRKIPALEEPNAHDTWIVCNF 142
>gnl|CDD|30637 COG0289, DapB, Dihydrodipicolinate reductase [Amino acid
transport and metabolism].
Length = 266
Score = 28.7 bits (64), Expect = 2.6
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 9/74 (12%)
Query: 1 MTFKVAVVGATGNVGREMLNIICERGFPISEVVA-------LASERSAGTKVPFGKETID 53
KVAV GA+G +GR ++ + E P E+VA L+ AG G +
Sbjct: 1 SMIKVAVAGASGRMGRTLIRAVLEA--PDLELVAAFDRPGSLSLGSDAGELAGLGLLGVP 58
Query: 54 VQDVKSYDFSDTDI 67
V D +D D+
Sbjct: 59 VTDDLLLVKADADV 72
>gnl|CDD|145777 pfam02800, Gp_dh_C, Glyceraldehyde 3-phosphate dehydrogenase,
C-terminal domain. GAPDH is a tetrameric NAD-binding
enzyme involved in glycolysis and glyconeogenesis.
C-terminal domain is a mixed alpha/antiparallel beta
fold.
Length = 158
Score = 28.3 bits (64), Expect = 3.2
Identities = 10/40 (25%), Positives = 21/40 (52%)
Query: 226 NIKVSCTAARVPVFIGHAESVNIEFEKDISIKDAVAAINK 265
K++ A RVP + +E EK +++++ AA+ +
Sbjct: 69 KGKLTGMAFRVPTPNVSVVDLTVELEKPVTVEEVNAALKE 108
>gnl|CDD|30388 COG0039, Mdh, Malate/lactate dehydrogenases [Energy production
and conversion].
Length = 313
Score = 27.8 bits (62), Expect = 3.9
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 9/78 (11%)
Query: 4 KVAVVGATGNVGREMLNIICERG-------FPISEVVALASERSAGTKVPFGKETIDVQD 56
KVAV+GA GNVG + ++ +G I+E A + +
Sbjct: 2 KVAVIGA-GNVGSSLAFLLLLQGLGSELVLIDINEEKAEGVALDLSHAAAPLGSDVKITG 60
Query: 57 VKSY-DFSDTDICLMSAG 73
Y D DI +++AG
Sbjct: 61 DGDYEDLKGADIVVITAG 78
>gnl|CDD|31046 COG0702, COG0702, Predicted nucleoside-diphosphate-sugar
epimerases [Cell envelope biogenesis, outer membrane /
Carbohydrate transport and metabolism].
Length = 275
Score = 28.0 bits (61), Expect = 4.4
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSA 41
K+ V GATG VG ++ + RG EV A A
Sbjct: 2 KILVTGATGFVGGAVVRELLARG---HEVRAAVRNPEA 36
>gnl|CDD|36643 KOG1430, KOG1430, KOG1430, C-3 sterol
dehydrogenase/3-beta-hydroxysteroid dehydrogenase and
related dehydrogenases [Lipid transport and metabolism,
Amino acid transport and metabolism].
Length = 361
Score = 27.6 bits (61), Expect = 4.6
Identities = 13/90 (14%), Positives = 31/90 (34%), Gaps = 7/90 (7%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASE------RSAGTKVPFGKETIDVQDV 57
V V G +G +G+ ++ + E E+ + + T G+ T+ + D+
Sbjct: 6 SVLVTGGSGFLGQHLVQALLENE-LKLEIRVVDKTPTQSNLPAELTGFRSGRVTVILGDL 64
Query: 58 KSYDFSDTDICLMSAGHAVSSQMSPKIAAN 87
+ H +S + + +
Sbjct: 65 LDANSISNAFQGAVVVHCAASPVPDFVEND 94
>gnl|CDD|31086 COG0743, Dxr, 1-deoxy-D-xylulose 5-phosphate reductoisomerase
[Lipid metabolism].
Length = 385
Score = 27.9 bits (62), Expect = 4.7
Identities = 15/37 (40%), Positives = 26/37 (70%), Gaps = 3/37 (8%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPIS-EVVALASER 39
K+ ++G+TG++G + L++I R P EVVALA+ +
Sbjct: 3 KLTILGSTGSIGTQTLDVI--RRNPDKFEVVALAAGK 37
>gnl|CDD|29742 cd01139, TroA_f, Periplasmic binding protein TroA_f. These
proteins are predicted to function as initial receptors
in the ABC metal ion uptake in eubacteria and archaea.
They belong to the TroA superfamily of helical backbone
metal receptor proteins that share a distinct fold and
ligand binding mechanism. A typical TroA protein is
comprised of two globular subdomains connected by a
single helix and can bind their ligands in the cleft
between these domains..
Length = 342
Score = 27.5 bits (61), Expect = 5.0
Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 76 VSSQMSPK--IAANGCIVIDNSSAWRYDSDVPLIVPEVNPQTISLASRKNIIANPNCSTI 133
S +++ + IAAN I+I W D + P+ + + ++ P S++
Sbjct: 220 TSGELNAEYVIAANPEIIIATGGNWAKDPSGVSLGPDGTTADAKESLLRALLKRPGWSSL 279
Query: 134 QLV 136
Q V
Sbjct: 280 QAV 282
>gnl|CDD|111556 pfam02670, DXP_reductoisom, 1-deoxy-D-xylulose 5-phosphate
reductoisomerase. This is a family of
1-deoxy-D-xylulose 5-phosphate reductoisomerases. This
enzyme catalyses the formation of
2-C-methyl-D-erythritol 4-phosphate from
1-deoxy-D-xylulose-5-phosphate in the presence of
NADPH. This reaction is part of the terpenoid
biosynthesis pathway.
Length = 129
Score = 27.5 bits (62), Expect = 5.6
Identities = 11/32 (34%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 5 VAVVGATGNVGREMLNIICERGFPISEVVALA 36
+ ++G+TG++G + L++I EVVAL+
Sbjct: 1 ITILGSTGSIGTQTLDVIRRNPDRF-EVVALS 31
>gnl|CDD|38964 KOG3760, KOG3760, KOG3760, Heparan sulfate-glucuronic acid
C5-epimerase [Carbohydrate transport and metabolism].
Length = 594
Score = 27.4 bits (60), Expect = 6.3
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 198 PHIDVFMDGGSTKEEWKV 215
P DV DG + K EWK
Sbjct: 208 PKDDVIEDGDNNKMEWKG 225
>gnl|CDD|133419 cd00650, LDH_MDH_like, NAD-dependent, lactate dehydrogenase-like,
2-hydroxycarboxylate dehydrogenase family. Members of
this family include ubiquitous enzymes like L-lactate
dehydrogenases (LDH), L-2-hydroxyisocaproate
dehydrogenases, and some malate dehydrogenases (MDH).
LDH catalyzes the last step of glycolysis in which
pyruvate is converted to L-lactate. MDH is one of the
key enzymes in the citric acid cycle, facilitating both
the conversion of malate to oxaloacetate and
replenishing levels of oxalacetate by reductive
carboxylation of pyruvate. The LDH/MDH-like proteins
are part of the NAD(P)-binding Rossmann fold
superfamily, which includes a wide variety of protein
families including the NAD(P)-binding domains of
alcohol dehydrogenases, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate
dehydrogenases, formate/glycerate dehydrogenases,
siroheme synthases, 6-phosphogluconate dehydrogenases,
aminoacid dehydrogenases, repressor rex, and
NAD-binding potassium channel domains, among others.
Length = 263
Score = 27.3 bits (61), Expect = 6.4
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 5 VAVVGATGNVGREMLNIICERG-FPISEVV 33
+AV+GA GNVG + + + E+V
Sbjct: 1 IAVIGAGGNVGPALAFGLADGSVLLAIELV 30
>gnl|CDD|145665 pfam02629, CoA_binding, CoA binding domain. This domain has a
Rossmann fold and is found in a number of proteins
including succinyl CoA synthetases, malate and
ATP-citrate ligases.
Length = 96
Score = 27.1 bits (61), Expect = 7.0
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVALASERSAGTKV 45
KVAV+GA+G + + + I G+ I V + + R GT+V
Sbjct: 5 KVAVIGASGLGIQGLYHFIQLLGYGIKMVFGV-NPRKGGTEV 45
>gnl|CDD|147783 pfam05818, TraT, Enterobacterial TraT complement resistance
protein. The traT gene is one of the F factor transfer
genes and encodes an outer membrane protein which is
involved in interactions between an Escherichia coli and
its surroundings.
Length = 215
Score = 26.9 bits (60), Expect = 7.3
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 252 KDISIKDAVAAINKSKGCIVVDKPDKNEYI 281
K+++++ + + ++KG VVD PDK Y
Sbjct: 34 KNVNLEQKLISALQAKGYKVVDDPDKAHYW 63
>gnl|CDD|34904 COG5322, COG5322, Predicted dehydrogenase [General function
prediction only].
Length = 351
Score = 26.9 bits (59), Expect = 7.5
Identities = 19/91 (20%), Positives = 35/91 (38%), Gaps = 3/91 (3%)
Query: 5 VAVVGATGNVGREMLNIICERGFPISEVV--ALASERSAGTKVPFGKETIDVQDVKSYDF 62
VA+VGATG++ + + + ++ A A R T + Y
Sbjct: 170 VAIVGATGDIASAIARWLAPKVGVKELLLRDAEARNRQRLTLLQEELGR-GKIMSLDYAL 228
Query: 63 SDTDICLMSAGHAVSSQMSPKIAANGCIVID 93
DI + A ++ P+ GC+++D
Sbjct: 229 PQEDILVWVASMPKGVEIFPQHLKPGCLIVD 259
>gnl|CDD|144632 pfam01113, DapB_N, Dihydrodipicolinate reductase, N-terminus.
Dihydrodipicolinate reductase (DapB) reduces the
alpha,beta-unsaturated cyclic imine,
dihydro-dipicolinate. This reaction is the second
committed step in the biosynthesis of L-lysine and its
precursor meso-diaminopimelate, which are critical for
both protein and cell wall biosynthesis. The N-terminal
domain of DapB binds the dinucleotide NADPH.
Length = 122
Score = 26.8 bits (60), Expect = 9.1
Identities = 17/31 (54%), Positives = 22/31 (70%), Gaps = 2/31 (6%)
Query: 4 KVAVVGATGNVGREMLNIICERGFPISEVVA 34
KVAVVGA+G +GRE++ I E P E+VA
Sbjct: 2 KVAVVGASGRMGRELIKAILEA--PDFELVA 30
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.318 0.133 0.375
Gapped
Lambda K H
0.267 0.0700 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,797,437
Number of extensions: 195639
Number of successful extensions: 516
Number of sequences better than 10.0: 1
Number of HSP's gapped: 496
Number of HSP's successfully gapped: 44
Length of query: 335
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 241
Effective length of database: 4,232,491
Effective search space: 1020030331
Effective search space used: 1020030331
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.2 bits)