RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020319
(327 letters)
>gnl|CDD|240127 cd04823, ALAD_PBGS_aspartate_rich, Porphobilinogen synthase (PBGS),
which is also called delta-aminolevulinic acid
dehydratase (ALAD), catalyzes the condensation of two
5-aminolevulinic acid (ALA) molecules to form the
pyrrole porphobilinogen (PBG), which is the second step
in the biosynthesis of tetrapyrroles, such as heme,
vitamin B12 and chlorophyll. This reaction involves the
formation of a Schiff base link between the substrate
and the enzyme. PBGSs are metalloenzymes, some of which
have a second, allosteric metal binding site, beside the
metal ion binding site in their active site. Although
PBGS is a family of homologous enzymes, its metal ion
utilization at catalytic site varies between zinc and
magnesium and/or potassium. PBGS can be classified into
two groups based on differences in their active site
metal binding site. All of PBGS_aspartate_rich contain
an aspartate rich metal binding site with the general
sequence DXALDX(Y/F)X3G(H/Q)DG. They also contain an
allosteric magnesium binding sequence RX~164DX~65EXXXD
and are activated by magnesium and/or potassium, but not
by zinc. PBGSs_aspartate_rich are found in some
bacterial species and photosynthetic organisms such as
vascular plants, mosses and algae, but not in archaea.
Length = 320
Score = 409 bits (1053), Expect = e-144
Identities = 134/218 (61%), Positives = 164/218 (75%), Gaps = 3/218 (1%)
Query: 104 RRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEE-DTPIGAMPGCYRLGWRHGLVQE 162
RPRRNR++ A+R +ET LSP + + PLF+HEGE PI +MPG +RL L++E
Sbjct: 1 TRPRRNRRTDALRRLVRETTLSPDDLILPLFVHEGENQREPIPSMPGVFRLSIDE-LLKE 59
Query: 163 VAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALD 222
+A D+G+ +V LFP P LKS G EAYN + LV R I +K+ +P+L I TDVALD
Sbjct: 60 AEEAVDLGIPAVALFPVTPPELKSEDGSEAYNPDNLVCRAIRAIKEAFPELGIITDVALD 119
Query: 223 PYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDA 282
PY+S GHDGIVR DG I+NDETV LCKQA+ QA AGAD+V+PSDMMDGR+GAIR ALDA
Sbjct: 120 PYTSHGHDGIVR-DGGILNDETVEVLCKQALVQAEAGADIVAPSDMMDGRIGAIREALDA 178
Query: 283 EGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
EGF +VSI+SY AKYAS+FYGPFR+AL S PR GDKKT
Sbjct: 179 EGFTNVSILSYAAKYASAFYGPFRDALGSAPRKGDKKT 216
>gnl|CDD|215945 pfam00490, ALAD, Delta-aminolevulinic acid dehydratase.
Length = 322
Score = 380 bits (978), Expect = e-133
Identities = 125/221 (56%), Positives = 157/221 (71%), Gaps = 3/221 (1%)
Query: 101 PLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRLGWRHGL 159
RPRR R+SPA+R +ET LSP++ +YPLF+ EGE E PI +MPG YRL L
Sbjct: 1 FPITRPRRLRRSPALRRLVRETRLSPSDLIYPLFVTEGEDEKEPIPSMPGVYRLS-VDLL 59
Query: 160 VQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDV 219
V+EV +A ++G+ +V+LF + LK G EAYN +GLV R I +K+ +PDLV+ TDV
Sbjct: 60 VKEVEEAVELGIPAVILFGVIDPELKDEDGSEAYNPDGLVQRAIRAIKEAFPDLVVITDV 119
Query: 220 ALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAA 279
L Y+S GH GI+ DG + NDET+ L KQA+S A AGAD+V+PSDMMDGRVGAIR A
Sbjct: 120 CLCEYTSHGHCGILE-DGEVDNDETLELLAKQALSHAEAGADIVAPSDMMDGRVGAIREA 178
Query: 280 LDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
LD GF V IMSY+AKYAS+FYGPFR+A S P FGD+KT
Sbjct: 179 LDEAGFTDVPIMSYSAKYASAFYGPFRDAAGSAPAFGDRKT 219
>gnl|CDD|214968 smart01004, ALAD, Delta-aminolevulinic acid dehydratase. This
entry represents porphobilinogen (PBG) synthase (PBGS,
or 5-aminoaevulinic acid dehydratase, or ALAD, ), which
functions during the second stage of tetrapyrrole
biosynthesis. This enzyme catalyses a Knorr-type
condensation reaction between two molecules of ALA to
generate porphobilinogen, the pyrrolic building block
used in later steps. The structure of the enzyme is
based on a TIM barrel topology made up of eight
identical subunits, where each subunit binds to a metal
ion that is essential for activity, usually zinc (in
yeast, mammals and certain bacteria) or magnesium (in
plants and other bacteria). A lysine has been implicated
in the catalytic mechanism. The lack of PBGS enzyme
causes a rare porphyric disorder known as ALAD
porphyria, which appears to involve conformational
changes in the enzyme.
Length = 321
Score = 378 bits (973), Expect = e-132
Identities = 127/220 (57%), Positives = 161/220 (73%), Gaps = 4/220 (1%)
Query: 102 LSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRHGLV 160
RPRR RK+PA+R +ET LSP++ +YPLF+ EGE++ PI +MPG YRL LV
Sbjct: 2 PFTRPRRLRKNPALRRLVRETRLSPSDLIYPLFVTEGEDEKEPIPSMPGVYRLSVDL-LV 60
Query: 161 QEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVA 220
+E +A ++G+ +V+LF VP+ K G EAYN +GLV R I +K +PDLV+ TDV
Sbjct: 61 EEAEEAVELGIPAVILFG-VPE-KKDEDGSEAYNPDGLVQRAIRAIKKAFPDLVVITDVC 118
Query: 221 LDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAAL 280
L Y+S GH GI+ EDG + NDET+ L KQA+SQA AGAD+V+PSDMMDGRVGAIR AL
Sbjct: 119 LCEYTSHGHCGILDEDGYVDNDETLEVLAKQALSQAEAGADIVAPSDMMDGRVGAIREAL 178
Query: 281 DAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
DA GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KT
Sbjct: 179 DAAGFTDVPIMSYSAKYASAFYGPFRDAAGSAPQFGDRKT 218
>gnl|CDD|236450 PRK09283, PRK09283, delta-aminolevulinic acid dehydratase;
Validated.
Length = 323
Score = 361 bits (930), Expect = e-125
Identities = 123/218 (56%), Positives = 155/218 (71%), Gaps = 5/218 (2%)
Query: 104 RRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRLGWRHGLVQE 162
RPRR RK+ A+R +ET L+P + +YPLF+ EGE E I +MPG YRL LV+E
Sbjct: 6 TRPRRLRKTAALRRLVRETRLTPNDLIYPLFVVEGENEREEIPSMPGVYRLS-IDLLVKE 64
Query: 163 VAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALD 222
+A ++G+ +V LF VP+ LK G EAYN +GLV R I +K +P+L + TDV LD
Sbjct: 65 AEEAVELGIPAVALFG-VPE-LKDEDGSEAYNPDGLVQRAIRAIKKAFPELGVITDVCLD 122
Query: 223 PYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDA 282
Y+S GH GI+ DG + NDET+ L KQA+SQA AGAD+V+PSDMMDGRVGAIR ALD
Sbjct: 123 EYTSHGHCGILE-DGYVDNDETLELLAKQALSQAEAGADIVAPSDMMDGRVGAIREALDE 181
Query: 283 EGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KT
Sbjct: 182 AGFTDVPIMSYSAKYASAFYGPFRDAAGSAPQFGDRKT 219
>gnl|CDD|223191 COG0113, HemB, Delta-aminolevulinic acid dehydratase [Coenzyme
metabolism].
Length = 330
Score = 340 bits (875), Expect = e-117
Identities = 118/220 (53%), Positives = 154/220 (70%), Gaps = 2/220 (0%)
Query: 102 LSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRHGLV 160
RRPRR RKSPA+R +ET L+P + +YP+F+ EGE I +MPG YR LV
Sbjct: 6 PFRRPRRLRKSPALRRLVRETRLTPNDLIYPIFVVEGENIKEEIPSMPGVYRYS-LDRLV 64
Query: 161 QEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVA 220
+E + D+G+ +V+LF D+ K TG EAY+ +G+V R + +K+ +P+LV+ TDV
Sbjct: 65 EEAEELVDLGIPAVILFGVPDDSKKDETGSEAYDPDGIVQRAVRAIKEAFPELVVITDVC 124
Query: 221 LDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAAL 280
L Y+ GH GI+ + G + NDET+ L KQAVSQA AGAD+V+PSDMMDGRVGAIR AL
Sbjct: 125 LCEYTDHGHCGILDDGGYVDNDETLEILAKQAVSQAEAGADIVAPSDMMDGRVGAIREAL 184
Query: 281 DAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
D GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KT
Sbjct: 185 DEAGFIDVPIMSYSAKYASAFYGPFRDAAGSAPKFGDRKT 224
>gnl|CDD|238226 cd00384, ALAD_PBGS, Porphobilinogen synthase (PBGS), which is also
called delta-aminolevulinic acid dehydratase (ALAD),
catalyzes the condensation of two 5-aminolevulinic acid
(ALA) molecules to form the pyrrole porphobilinogen
(PBG), which is the second step in the biosynthesis of
tetrapyrroles, such as heme, vitamin B12 and
chlorophyll. This reaction involves the formation of a
Schiff base link between the substrate and the enzyme.
PBGSs are metalloenzymes, some of which have a second,
allosteric metal binding site, beside the metal ion
binding site in their active site. Although PBGS is a
family of homologous enzymes, its metal ion utilization
at catalytic site varies between zinc and magnesium
and/or potassium. PBGS can be classified into two groups
based on differences in their active site metal binding
site. They either contain a cysteine-rich zinc binding
site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an
aspartate-rich magnesium binding site (consensus
DXALDX(Y/F)X3G(H/Q)DG). The cysteine-rich zinc binding
site appears more common. Most members represented by
this model also have a second allosteric magnesium
binding site (consensus RX~164DX~65EXXXD, missing in a
eukaryotic subfamily with cysteine-rich zinc binding
site).
Length = 314
Score = 297 bits (764), Expect = e-100
Identities = 114/215 (53%), Positives = 147/215 (68%), Gaps = 5/215 (2%)
Query: 107 RRNRKSPAMRASFQETNLSPANFVYPLFIHEGE-EDTPIGAMPGCYRLGWRHGLVQEVAK 165
RR R+SPA+R +ET LSP + +YPLF+ EG E I +MPG YRL LV+E +
Sbjct: 1 RRLRRSPALRDLVRETRLSPDDLIYPLFVVEGIDEKEEISSMPGVYRLSVDS-LVEEAEE 59
Query: 166 ARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALDPYS 225
D+G+ +V+LF +P+ K G EAY+ +G+V R I +K+ P+LV+ TDV L Y+
Sbjct: 60 LADLGIRAVILFG-IPEH-KDEIGSEAYDPDGIVQRAIRAIKEAVPELVVITDVCLCEYT 117
Query: 226 SDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDAEGF 285
GH GI++ D + ND T+ L K AVS A AGAD+V+PSDMMDGRV AIR ALD GF
Sbjct: 118 DHGHCGILK-DDYVDNDATLELLAKIAVSHAEAGADIVAPSDMMDGRVAAIREALDEAGF 176
Query: 286 QHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
V IMSY+AKYAS+FYGPFR+A DS P FGD+KT
Sbjct: 177 SDVPIMSYSAKYASAFYGPFRDAADSAPSFGDRKT 211
>gnl|CDD|172020 PRK13384, PRK13384, delta-aminolevulinic acid dehydratase;
Provisional.
Length = 322
Score = 211 bits (539), Expect = 2e-66
Identities = 92/223 (41%), Positives = 137/223 (61%), Gaps = 6/223 (2%)
Query: 99 SLPLSRRPRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRH 157
+ RR RR R+S AMR +ET +S ++ +YP+FI E D PI +PG RL
Sbjct: 3 NTFPLRRLRRLRRSEAMRDLVRETEVSLSDLIYPIFIEEHITDAVPISTLPGISRLPESA 62
Query: 158 GLVQEVAKARDVGVNSVVLFPKVPDALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYT 217
L E+ + +G+ V+ F K G + ++DNGL+ R + +K P++++
Sbjct: 63 -LADEIERLYALGIRYVMPFGI--SHHKDAKGSDTWDDNGLLARMVRTIKAAVPEMMVIP 119
Query: 218 DVALDPYSSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIR 277
D+ Y+ GH G++ D V ND TV L KQ+V+ A+AGAD+++PS MMDG+V AIR
Sbjct: 120 DICFCEYTDHGHCGVLHNDEV-DNDATVENLVKQSVTAAKAGADMLAPSAMMDGQVKAIR 178
Query: 278 AALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKT 320
LDA GF+HV+I++++AK+ASSFYGPFR A+D GD+K+
Sbjct: 179 QGLDAAGFEHVAILAHSAKFASSFYGPFRAAVDCELS-GDRKS 220
>gnl|CDD|240128 cd04824, eu_ALAD_PBGS_cysteine_rich, Porphobilinogen synthase
(PBGS), which is also called delta-aminolevulinic acid
dehydratase (ALAD), catalyzes the condensation of two
5-aminolevulinic acid (ALA) molecules to form the
pyrrole porphobilinogen (PBG), which is the second step
in the biosynthesis of tetrapyrroles, such as heme,
vitamin B12 and chlorophyll. This reaction involves the
formation of a Schiff base link between the substrate
and the enzyme. PBGSs are metalloenzymes, some of which
have a second, allosteric metal binding site, beside the
metal ion binding site in their active site. Although
PBGS is a family of homologous enzymes, its metal ion
utilization at catalytic site varies between zinc and
magnesium and/or potassium. PBGS can be classified into
two groups based on differences in their active site
metal binding site. The eukaryotic PBGSs represented by
this model, which contain a cysteine-rich zinc binding
motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their
activity, they do not contain an additional allosteric
metal binding site and do not bind magnesium.
Length = 320
Score = 193 bits (492), Expect = 2e-59
Identities = 91/216 (42%), Positives = 134/216 (62%), Gaps = 16/216 (7%)
Query: 113 PAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRHGLVQE-----VAKA 166
P +R E L+ +N +YP+FI + + PI ++PG R G ++E VAK
Sbjct: 7 PLLRQWQSERTLTKSNLIYPIFITDNPDAKQPIDSLPGINRYGVN--RLEEFLRPLVAK- 63
Query: 167 RDVGVNSVVLFPKVP--DALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALDPY 224
G+ SV+LF VP +G A +++G V + I L+++ +P+L+I DV L Y
Sbjct: 64 ---GLRSVILF-GVPLKPGKDDRSGSAADDEDGPVIQAIKLIREEFPELLIACDVCLCEY 119
Query: 225 SSDGHDGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDAEG 284
+S GH GI+ EDG I N+ +V +L + A++ A+AGA +V+PSDMMDGRV AI+ AL G
Sbjct: 120 TSHGHCGILYEDGTINNEASVKRLAEVALAYAKAGAHIVAPSDMMDGRVRAIKQALIQAG 179
Query: 285 FQH-VSIMSYTAKYASSFYGPFREALDSNPRFGDKK 319
+ VS+MSY+AK+AS YGPFR+A S P FGD++
Sbjct: 180 LGNKVSVMSYSAKFASCLYGPFRDAACSAPSFGDRR 215
>gnl|CDD|233365 TIGR01347, sucB, 2-oxoglutarate dehydrogenase complex
dihydrolipoamide succinyltransferase (E2 component).
This model describes the TCA cycle 2-oxoglutarate system
E2 component, dihydrolipoamide succinyltransferase. It
is closely related to the pyruvate dehydrogenase E2
component, dihydrolipoamide acetyltransferase. The seed
for this model includes mitochondrial and Gram-negative
bacterial forms. Mycobacterial candidates are highly
derived, differ in having and extra copy of the
lipoyl-binding domain at the N-terminus. They score
below the trusted cutoff, but above the noise cutoff and
above all examples of dihydrolipoamide acetyltransferase
[Energy metabolism, TCA cycle].
Length = 403
Score = 32.4 bits (74), Expect = 0.27
Identities = 18/80 (22%), Positives = 26/80 (32%), Gaps = 3/80 (3%)
Query: 48 VVTASKSHDGTTKKLGISDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPR 107
V+ +G T + G A E A P A K PA + +
Sbjct: 53 VLQEILFKEGDTVESGQVLAILEEGNDATAAPPAKSGEEKEETPA-ASAAAAPTAA--AN 109
Query: 108 RNRKSPAMRASFQETNLSPA 127
R SPA R +E + +
Sbjct: 110 RPSLSPAARRLAKEHGIDLS 129
>gnl|CDD|130587 TIGR01524, ATPase-IIIB_Mg, magnesium-translocating P-type ATPase.
This model describes the magnesium translocating P-type
ATPase found in a limited number of bacterial species
and best described in Salmonella typhimurium, which
contains two isoforms. These transporters are active in
low external Mg2+ concentrations and pump the ion into
the cytoplasm. The magnesium ATPases have been
classified as type IIIB by a phylogenetic analysis
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 867
Score = 32.5 bits (74), Expect = 0.34
Identities = 17/67 (25%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 238 VIMNDETVHQL-CKQAV-------SQARAGADVVSPSDMMDGRVGAIRAALDAEGFQHVS 289
V+ N V +L CK AV + R G VV+ S+ + + A ++ +G + ++
Sbjct: 424 VVENRAEVTRLICKGAVEEMLTVCTHKRFGGAVVTLSESEKSELQDMTAEMNRQGIRVIA 483
Query: 290 IMSYTAK 296
+ + T K
Sbjct: 484 VATKTLK 490
>gnl|CDD|177622 PHA03386, P10, fibrous body protein; Provisional.
Length = 94
Score = 30.3 bits (68), Expect = 0.35
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 52 SKSHDGTTKKLGISD---AECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRR 108
S+ DG +L D ++ ++ + +P+ PP PP P P P R RR
Sbjct: 35 SQPLDGLPAQLTELDTKVSDIQSILTGDEVPD-PPDPPLPLLP--EPEFELDSDIPRGRR 91
Query: 109 NRK 111
+RK
Sbjct: 92 SRK 94
>gnl|CDD|234266 TIGR03571, lucif_BA3436, luciferase-type oxidoreductase, BA3436
family. This family is a distinct subgroup among
members of the luciferase monooxygenase domain family.
The larger family contains both FMN-binding enzymes
(luciferase, alkane monooxygenase) and F420-binding
enzymes (methylenetetrahydromethanopterin reductase,
secondary alcohol dehydrogenase, glucose-6-phosphate
dehydrogenase). Although some members of the domain
family bind coenzyme F420 rather than FMN, members of
this family are from species that lack the genes for
F420 biosynthesis. A crystal structure, but not
function, is known (but unpublished) for the member from
Bacillus cereus, PDB|2B81 [Unknown function, Enzymes of
unknown specificity].
Length = 298
Score = 31.9 bits (73), Expect = 0.40
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 129 FVYPLFIHEGEE-DTPIGAMPGCYRLGWRHGLVQEVAKARDVGVNSVVLFPK 179
F + + E+ D P + YR G R+ L++ + R+ GVN V L +
Sbjct: 227 FGQSMHLDLSEDPDEPPTPIRLGYRTG-RNALIELLDALREAGVNHVALNLR 277
>gnl|CDD|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 32.3 bits (74), Expect = 0.42
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 238 VIMNDETVHQL-CKQAV-------SQARAGADVVSPSDMMDGRVGAIRAALDAEGFQHVS 289
V+ + HQL CK A+ SQ R ++V D+M R+ + L+ +G + V+
Sbjct: 459 VVAENTEHHQLICKGALEEILNVCSQVRHNGEIVPLDDIMLRRIKRVTDTLNRQGLRVVA 518
Query: 290 I 290
+
Sbjct: 519 V 519
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 31.8 bits (72), Expect = 0.47
Identities = 16/60 (26%), Positives = 19/60 (31%), Gaps = 8/60 (13%)
Query: 60 KKLGISDAECEAAVVA--------GNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRK 111
K G +AE A + K AAPA P +PRR RK
Sbjct: 7 KIFGKGEAEQPAPAPPSPAAAPAPPPPAKTAAPATKAAAPAAAAPRAEKPKKDKPRRERK 66
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 31.6 bits (71), Expect = 0.54
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 3/71 (4%)
Query: 59 TKKLGISDAECEAAVVAGN--IPEAP-PVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAM 115
TK IS +E A+ V + IPE P P PA P V S P++ +P+ P
Sbjct: 160 TKVAIISKSEDAASQVTPSQKIPETTDPKPSPPAEDKQKPKVESAPVAEKPKAPSSPPPP 219
Query: 116 RASFQETNLSP 126
+ S +E L P
Sbjct: 220 KQSAKEPQLPP 230
>gnl|CDD|223237 COG0159, TrpA, Tryptophan synthase alpha chain [Amino acid
transport and metabolism].
Length = 265
Score = 30.7 bits (70), Expect = 1.00
Identities = 12/48 (25%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 135 IHEGEEDTPIGAMPGCYRLGWRHGLVQEVAKARDVGVNSVVLFPKVPD 182
I PI M Y + +G+ + + +A++ GV+ ++ VPD
Sbjct: 88 IRAKGVKVPIVLM-TYYNPIFNYGIEKFLRRAKEAGVDGLL----VPD 130
>gnl|CDD|139164 PRK12700, flgH, flagellar basal body L-ring protein; Reviewed.
Length = 230
Score = 30.0 bits (67), Expect = 1.4
Identities = 19/42 (45%), Positives = 23/42 (54%), Gaps = 7/42 (16%)
Query: 73 VVAGNIPEAPPVPPKPAA-PAGTPVVPSL----PL--SRRPR 107
VV G + PP PP+P+A P G+ PS PL RRPR
Sbjct: 30 VVTGPLTAPPPPPPQPSARPNGSIYQPSAYGNYPLFEDRRPR 71
>gnl|CDD|235826 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Validated.
Length = 130
Score = 29.0 bits (65), Expect = 1.5
Identities = 11/33 (33%), Positives = 14/33 (42%)
Query: 67 AECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPS 99
A V P+ P+PAA AG +PS
Sbjct: 34 ASTPVPVPTEASPQVEAQAPQPAAAAGADAMPS 66
>gnl|CDD|184734 PRK14545, PRK14545, nucleoside diphosphate kinase; Provisional.
Length = 139
Score = 29.1 bits (65), Expect = 1.6
Identities = 17/66 (25%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 262 VVSPSDMMDGRVGAIRAALDAEGFQHVSI--MSYTAKYASSFYGPFREALDSNPRFGDKK 319
++ P + +G +G I + A GF+ V++ T A +FY E P +G+
Sbjct: 9 MIKPDAVENGHIGGILDMITAAGFRIVAMKLTQLTVADAETFYAVHAE----RPFYGELV 64
Query: 320 TKLQRG 325
+ RG
Sbjct: 65 EFMSRG 70
>gnl|CDD|113398 pfam04625, DEC-1_N, DEC-1 protein, N-terminal region. The
defective chorion-1 gene (dec-1) in Drosophila encodes
follicle cell proteins necessary for proper eggshell
assembly. Multiple products of the dec-1 gene are formed
by alternative RNA splicing and proteolytic processing.
Cleavage products include S80 (80 kDa) which is
incorporated into the eggshell, and further proteolysis
of S80 gives S60 (60 kDa).
Length = 407
Score = 29.8 bits (66), Expect = 1.9
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 71 AAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANF 129
AA V P PP APA +P + +P ++ A++ +F T L+P+NF
Sbjct: 106 AAPVPAPAPAPAAAPPAAPAPAADTPAAPIPDAVQPAILGQA-ALQNAF--TFLNPSNF 161
>gnl|CDD|223254 COG0176, MipB, Transaldolase [Carbohydrate transport and
metabolism].
Length = 239
Score = 29.5 bits (67), Expect = 2.0
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 10/57 (17%)
Query: 251 QAVSQARAGADVVSP---------SDMMDGRVGAIRAALDAEGFQHVSIMSYTAKYA 298
QA+ A AGA +SP D M G + R D + +A++
Sbjct: 128 QALLAAEAGATYISPFVGRIDDWGIDGMLG-IAEAREIYDYYKQHGAKTLVASARFP 183
>gnl|CDD|238579 cd01174, ribokinase, Ribokinase catalyses the phosphorylation of
ribose to ribose-5-phosphate using ATP. This reaction is
the first step in the ribose metabolism. It traps ribose
within the cell after uptake and also prepares the sugar
for use in the synthesis of nucleotides and histidine,
and for entry into the pentose phosphate pathway.
Ribokinase is dimeric in solution.
Length = 292
Score = 29.4 bits (67), Expect = 2.0
Identities = 15/43 (34%), Positives = 17/43 (39%), Gaps = 11/43 (25%)
Query: 251 QAVSQARAGADVVSPSDMMDGRVG------AIRAALDAEGFQH 287
QAV+ AR GA V M G VG + L EG
Sbjct: 42 QAVAAARLGARVA-----MIGAVGDDAFGDELLENLREEGIDV 79
>gnl|CDD|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 484
Score = 29.9 bits (68), Expect = 2.2
Identities = 14/54 (25%), Positives = 19/54 (35%)
Query: 64 ISDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRA 117
A A AP +PAAPA P + ++R R+ RA
Sbjct: 52 APPAAAAPAAAQPPPAAAPAAVSRPAAPAAEPAPWLVEHAKRLTAQREQLVARA 105
>gnl|CDD|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 29.8 bits (67), Expect = 2.6
Identities = 15/47 (31%), Positives = 17/47 (36%)
Query: 71 AAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRA 117
A A AP PKPAAP VP+ + A RA
Sbjct: 570 RAAAAAKPAAAPAAAPKPAAPRVAVQVPTPRARAATGDAPPNGAARA 616
>gnl|CDD|216368 pfam01213, CAP_N, Adenylate cyclase associated (CAP) N terminal.
Length = 313
Score = 29.0 bits (65), Expect = 2.9
Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 60 KKLGISDAECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASF 119
KK ++ A+ V+ + P APP PP P P+ + S+ + A F
Sbjct: 211 KKGPVAAAKSALPAVSSSAPSAPPPPPPPPPPSVPTISNSVE----SASSDSKGGRGAVF 266
Query: 120 QETN 123
E N
Sbjct: 267 AELN 270
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 29.1 bits (65), Expect = 3.6
Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 1/44 (2%)
Query: 65 SDAECEAAVVAGNIPEAP-PVPPKPAAPAGTPVVPSLPLSRRPR 107
+ E P AP P PAA A PV + P + PR
Sbjct: 4 ATDAKEEPAKEEATPPAPAASAPAPAAAAPAPVAAAAPAAAGPR 47
>gnl|CDD|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 29.1 bits (65), Expect = 3.6
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 81 APPVPPKPAAPAGTPVVPSLP 101
PP PP+ P T P+ P
Sbjct: 919 GPPAPPQAVPPPRTTQPPAAP 939
>gnl|CDD|236255 PRK08385, PRK08385, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 278
Score = 28.5 bits (64), Expect = 4.3
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 252 AVSQARAGADVVSPSDMMDGRVGAIRAALDAEG 284
A+ A+AGAD++ +M + + AL EG
Sbjct: 195 ALKAAKAGADIIMLDNMTPEEIREVIEALKREG 227
>gnl|CDD|238990 cd02033, BchX, Chlorophyllide reductase converts chlorophylls into
bacteriochlorophylls by reducing the chlorin B-ring.
This family contains the X subunit of this three-subunit
enzyme. Sequence and structure similarity between bchX,
protochlorophyllide reductase L subunit (bchL and chlL)
and nitrogenase Fe protein (nifH gene) suggest their
functional similarity. Members of the BchX family serve
as the unique electron donors to their respective
catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase
component 1). Mechanistically, they hydrolyze ATP and
transfer electrons through a Fe4-S4 cluster.
Length = 329
Score = 28.8 bits (64), Expect = 4.3
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 74 VAGNIPEAPPVPPKPAAPAG 93
+A N+ EAPP+ PKP +
Sbjct: 268 LATNVAEAPPMRPKPLSQDE 287
>gnl|CDD|223037 PHA03301, PHA03301, envelope glycoprotein L; Provisional.
Length = 226
Score = 28.3 bits (63), Expect = 4.8
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 75 AGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMR 116
A P++ PP AAP+ P R+PR NR P+
Sbjct: 187 ASPQPKSLATPPPVAAPSRRTPRP----RRKPRGNRTRPSRP 224
Score = 27.5 bits (61), Expect = 8.9
Identities = 13/39 (33%), Positives = 15/39 (38%), Gaps = 5/39 (12%)
Query: 80 EAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRAS 118
EA P P A P P SRR R R+ P +
Sbjct: 186 EASPQPKSLATPP-----PVAAPSRRTPRPRRKPRGNRT 219
>gnl|CDD|235953 PRK07188, PRK07188, nicotinate phosphoribosyltransferase;
Provisional.
Length = 352
Score = 28.4 bits (64), Expect = 5.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 273 VGAIRAALDAEGFQHVSI 290
+ A+R ALD G +HV I
Sbjct: 266 IKALRKALDENGGKHVKI 283
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 28.8 bits (64), Expect = 5.1
Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 6/46 (13%)
Query: 82 PPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPA 127
PP PP PA +V + PL P A R + +PA
Sbjct: 2701 PPPPPPTPEPAPHALVSATPLPPGPA------AARQASPALPAAPA 2740
Score = 28.4 bits (63), Expect = 7.4
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 79 PEAPPVPPKPAAPAGTPVVPSLPLSRRP 106
P PP PP P+ P G V P + RRP
Sbjct: 2839 PPPPPGPPPPSLPLGGSVAPGGDVRRRP 2866
>gnl|CDD|185364 PRK15467, PRK15467, ethanolamine utilization protein EutP;
Provisional.
Length = 158
Score = 28.0 bits (62), Expect = 5.1
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 262 VVSPSDMMDGRVGAIRAALDAEGFQ 286
V+S +DM D V A R L GF+
Sbjct: 97 VISKTDMPDADVAATRKLLLETGFE 121
>gnl|CDD|219130 pfam06674, DUF1176, Protein of unknown function (DUF1176). This
family consists of several hypothetical bacterial
proteins of around 340 residues in length. Members of
this family contain six highly conserved cysteine
residues. The function of this family is unknown.
Length = 338
Score = 28.1 bits (63), Expect = 5.8
Identities = 14/49 (28%), Positives = 16/49 (32%), Gaps = 2/49 (4%)
Query: 71 AAVVAGNIPE--APPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRA 117
A V G P PP PP P A + PL R P +
Sbjct: 154 ALVRKGTKPASSVPPAPPLPVIRAAPAPPAAAPLDPAEARLLADPILAL 202
>gnl|CDD|237782 PRK14666, uvrC, excinuclease ABC subunit C; Provisional.
Length = 694
Score = 28.3 bits (63), Expect = 6.8
Identities = 30/138 (21%), Positives = 41/138 (29%), Gaps = 25/138 (18%)
Query: 46 RLVVTASKSHDGTTKKLGISDAECEAA------VVAGNIPEAPPVPPKPAAPAGTPVVPS 99
R+VV +G A C A + + PE P P A A TPV S
Sbjct: 310 RIVVPWLPDTEGREGDDLAPTAVCTDAGLLPDTPLLPDAPEGSSDPVVPVAAA-TPVDAS 368
Query: 100 LPLSRR-PRRNRKSPAMRASFQETNLSPANFVYPLFIHEGEEDTPIGAMPGCYRLGWRHG 158
LP R + A PA + T + G G H
Sbjct: 369 LPDVRTGTAPTSLANVSHA-------DPAV----------AQPTQAATLAGAAPKGATHL 411
Query: 159 LVQEVAKARDVGVNSVVL 176
+++E G +V
Sbjct: 412 MLEETLADLRGGPVRIVP 429
>gnl|CDD|223068 PHA03384, PHA03384, early DNA-binding protein E2A; Provisional.
Length = 445
Score = 28.1 bits (63), Expect = 7.5
Identities = 11/69 (15%), Positives = 21/69 (30%), Gaps = 2/69 (2%)
Query: 82 PPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQETNLSPANFVYP--LFIHEGE 139
P + + + P LP ++ RR +E + F YP +
Sbjct: 7 SSDSPYSSDDSPSLEPPELPPKKKGRRRVSPVEEEEEEEEAEVVAVGFSYPPVRISRGKD 66
Query: 140 EDTPIGAMP 148
P+ +
Sbjct: 67 GKRPVRPLK 75
>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 = 27.6 bits (61), Expect = 8.5
Identities = 12/28 (42%), Positives = 12/28 (42%)
Query: 74 VAGNIPEAPPVPPKPAAPAGTPVVPSLP 101
A P PP PP AA A P P P
Sbjct: 36 TANADPAPPPPPPSTAAAAPAPAAPPPP 63
>gnl|CDD|223062 PHA03373, PHA03373, tegument protein; Provisional.
Length = 247
Score = 27.5 bits (61), Expect = 8.6
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 77 NIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRASFQET 122
+P+APP + P V P RR R ++S S +E
Sbjct: 194 GLPQAPPNLQQDEREGTGPPVTEQPSGRRKSRRKRSEGGARSTREL 239
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC protein.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 378
Score = 27.6 bits (61), Expect = 9.2
Identities = 16/48 (33%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 47 LVVTASKSHDGTTKKLGISDAECEAAVVAGNIPEAPPVPPKPAAPAGT 94
+VV SK GT K + A +A P A P AAPA
Sbjct: 70 VVVMVSKPKTGTGK-VAPPAATPTSAPTPTPSPPASPASGMSAAPASA 116
>gnl|CDD|237001 PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase
subunit E2; Reviewed.
Length = 411
Score = 27.8 bits (63), Expect = 9.4
Identities = 15/51 (29%), Positives = 19/51 (37%)
Query: 67 AECEAAVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRNRKSPAMRA 117
AA A P P P AA A P + P + + SPA+R
Sbjct: 83 EAAAAAEAAPEAPAPEPAPAAAAAAAAAPAAAAAPAAPAAAAAKASPAVRK 133
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 0.133 0.400
Gapped
Lambda K H
0.267 0.0905 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,814,882
Number of extensions: 1619491
Number of successful extensions: 2564
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2428
Number of HSP's successfully gapped: 115
Length of query: 327
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 230
Effective length of database: 6,635,264
Effective search space: 1526110720
Effective search space used: 1526110720
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: 59 (26.2 bits)