RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 014237
(428 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 = 598 bits (1545), Expect = 0.0
Identities = 194/322 (60%), Positives = 244/322 (75%), Gaps = 3/322 (0%)
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 EGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEG 342
EGF +VSI+SY AKYAS+FYGPFR+AL S PR GDKKTYQM+PAN REAL E D +EG
Sbjct: 179 EGFTNVSILSYAAKYASAFYGPFRDALGSAPRKGDKKTYQMDPANSREALREVALDIAEG 238
Query: 343 ADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESLMC 402
AD+++VKPG+PYLD+IR ++D++ +P AYQVSGEY+M+KA +DE +VM+ESL+
Sbjct: 239 ADMVMVKPGMPYLDIIRRVKDEFGVPTFAYQVSGEYAMLKAAAQNGWLDEDKVMLESLLA 298
Query: 403 LRRAGADIILTYFALQAARCLC 424
+RAGAD ILTYFA +AA L
Sbjct: 299 FKRAGADGILTYFAKEAAEWLR 320
>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 = 570 bits (1471), Expect = 0.0
Identities = 191/323 (59%), Positives = 246/323 (76%), Gaps = 4/323 (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 DAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADES 340
DA GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KTYQM+PAN REAL E D +
Sbjct: 179 DAAGFTDVPIMSYSAKYASAFYGPFRDAAGSAPQFGDRKTYQMDPANRREALREVALDIA 238
Query: 341 EGADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESL 400
EGAD+++VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA IDE+RV++ESL
Sbjct: 239 EGADMVMVKPALPYLDIIRRVKDEFDLPVAAYQVSGEYAMIKAAAQNGWIDEERVVLESL 298
Query: 401 MCLRRAGADIILTYFALQAARCL 423
+ ++RAGAD+I+TYFA +AAR L
Sbjct: 299 LSIKRAGADLIITYFAKEAARWL 321
>gnl|CDD|215945 pfam00490, ALAD, Delta-aminolevulinic acid dehydratase.
Length = 322
Score = 568 bits (1466), Expect = 0.0
Identities = 188/324 (58%), Positives = 241/324 (74%), Gaps = 3/324 (0%)
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 LDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADE 339
LD GF V IMSY+AKYAS+FYGPFR+A S P FGD+KTYQM+PAN REAL E D
Sbjct: 179 LDEAGFTDVPIMSYSAKYASAFYGPFRDAAGSAPAFGDRKTYQMDPANRREALREVALDI 238
Query: 340 SEGADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMES 399
EGAD+++VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA +DE+RV++ES
Sbjct: 239 EEGADMVMVKPALPYLDIIRRVKDRFDLPVAAYQVSGEYAMIKAAAQNGWLDEKRVVLES 298
Query: 400 LMCLRRAGADIILTYFALQAARCL 423
L+ ++RAGAD+I+TYFA +AAR L
Sbjct: 299 LLSIKRAGADLIITYFAKEAARWL 322
>gnl|CDD|236450 PRK09283, PRK09283, delta-aminolevulinic acid dehydratase;
Validated.
Length = 323
Score = 548 bits (1415), Expect = 0.0
Identities = 188/321 (58%), Positives = 237/321 (73%), Gaps = 5/321 (1%)
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 EGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEG 342
GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KTYQM+PAN REAL E D EG
Sbjct: 182 AGFTDVPIMSYSAKYASAFYGPFRDAAGSAPQFGDRKTYQMDPANRREALREVALDIEEG 241
Query: 343 ADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESLMC 402
AD+++VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA IDE+RV++ESL+
Sbjct: 242 ADMVMVKPALPYLDIIRRVKDEFNLPVAAYQVSGEYAMIKAAAQNGWIDEERVVLESLLS 301
Query: 403 LRRAGADIILTYFALQAARCL 423
++RAGAD ILTYFA AAR L
Sbjct: 302 IKRAGADGILTYFAKDAARWL 322
>gnl|CDD|223191 COG0113, HemB, Delta-aminolevulinic acid dehydratase [Coenzyme
metabolism].
Length = 330
Score = 514 bits (1325), Expect = 0.0
Identities = 180/323 (55%), Positives = 236/323 (73%), Gaps = 2/323 (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 DAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADES 340
D GF V IMSY+AKYAS+FYGPFR+A S P+FGD+KTYQM+PAN REAL E + D
Sbjct: 185 DEAGFIDVPIMSYSAKYASAFYGPFRDAAGSAPKFGDRKTYQMDPANRREALREIELDIE 244
Query: 341 EGADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESL 400
EGADIL+VKP LPYLD+IR +++++ LP+AAYQVSGEY+MIKA IDE++V++ESL
Sbjct: 245 EGADILMVKPALPYLDIIRRVKEEFNLPVAAYQVSGEYAMIKAAAQNGWIDEEKVVLESL 304
Query: 401 MCLRRAGADIILTYFALQAARCL 423
++RAGAD+I+TYFA + A L
Sbjct: 305 TSIKRAGADLIITYFAKEVAEWL 327
>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 = 477 bits (1230), Expect = e-169
Identities = 178/318 (55%), Positives = 228/318 (71%), Gaps = 5/318 (1%)
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 QHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEGADI 345
V IMSY+AKYAS+FYGPFR+A DS P FGD+KTYQM+PAN REAL E + D EGADI
Sbjct: 177 SDVPIMSYSAKYASAFYGPFRDAADSAPSFGDRKTYQMDPANRREALREVELDIEEGADI 236
Query: 346 LLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESLMCLRR 405
L+VKP L YLD+IR +R+++ LP+AAY VSGEY+MIKA IDE+RV++ESL ++R
Sbjct: 237 LMVKPALAYLDIIRDVRERFDLPVAAYNVSGEYAMIKAAAKNGWIDEERVVLESLTSIKR 296
Query: 406 AGADIILTYFALQAARCL 423
AGAD+I+TYFA AAR L
Sbjct: 297 AGADLIITYFAKDAARWL 314
>gnl|CDD|172020 PRK13384, PRK13384, delta-aminolevulinic acid dehydratase;
Provisional.
Length = 322
Score = 354 bits (909), Expect = e-121
Identities = 149/325 (45%), Positives = 214/325 (65%), Gaps = 6/325 (1%)
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 AALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQA 337
LDA GF+HV+I++++AK+ASSFYGPFR A+D GD+K+YQ++ AN R+AL+EA
Sbjct: 179 QGLDAAGFEHVAILAHSAKFASSFYGPFRAAVDCELS-GDRKSYQLDYANGRQALLEALL 237
Query: 338 DESEGADILLVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMM 397
DE+EGADIL+VKPG PYLDV+ LR + LP+AAYQV GEY+MIK +DE+ V+
Sbjct: 238 DEAEGADILMVKPGTPYLDVLSRLRQETHLPLAAYQVGGEYAMIKFAALAGALDERAVVT 297
Query: 398 ESLMCLRRAGADIILTYFALQAARC 422
E+L L+RAGAD+I++Y+A Q A+
Sbjct: 298 ETLGGLKRAGADLIVSYYAKQYAQW 322
>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 = 308 bits (790), Expect = e-103
Identities = 136/311 (43%), Positives = 198/311 (63%), Gaps = 7/311 (2%)
Query: 113 PAMRASFQETNLSPANFVYPLFIHEGEED-TPIGAMPGCYRLGWRHGLVQEVAKARDVGV 171
P +R E L+ +N +YP+FI + + PI ++PG R G L + + G+
Sbjct: 7 PLLRQWQSERTLTKSNLIYPIFITDNPDAKQPIDSLPGINRYGVNR-LEEFLRPLVAKGL 65
Query: 172 NSVVLFPKVP--DALKSPTGDEAYNDNGLVPRTIWLLKDRYPDLVIYTDVALDPYSSDGH 229
SV+LF VP +G A +++G V + I L+++ +P+L+I DV L Y+S GH
Sbjct: 66 RSVILF-GVPLKPGKDDRSGSAADDEDGPVIQAIKLIREEFPELLIACDVCLCEYTSHGH 124
Query: 230 DGIVREDGVIMNDETVHQLCKQAVSQARAGADVVSPSDMMDGRVGAIRAALDAEGFQH-V 288
GI+ EDG I N+ +V +L + A++ A+AGA +V+PSDMMDGRV AI+ AL G + V
Sbjct: 125 CGILYEDGTINNEASVKRLAEVALAYAKAGAHIVAPSDMMDGRVRAIKQALIQAGLGNKV 184
Query: 289 SIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEGADILLV 348
S+MSY+AK+AS YGPFR+A S P FGD++ YQ+ P AL + D SEGAD+++V
Sbjct: 185 SVMSYSAKFASCLYGPFRDAACSAPSFGDRRCYQLPPGARGLALRAVERDVSEGADMIMV 244
Query: 349 KPGLPYLDVIRLLRDKYP-LPIAAYQVSGEYSMIKAGGALKMIDEQRVMMESLMCLRRAG 407
KPG PYLD++R +DK+P LP+A Y VSGEY+M+ A D +R ++E++ RRAG
Sbjct: 245 KPGTPYLDIVREAKDKHPDLPLAVYHVSGEYAMLHAAAEAGAFDLKRAVLEAMTGFRRAG 304
Query: 408 ADIILTYFALQ 418
ADII+TYF +
Sbjct: 305 ADIIITYFTPE 315
>gnl|CDD|173970 cd08205, RuBisCO_IV_RLP, Ribulose bisphosphate carboxylase like
proteins, Rubisco-Form IV. Ribulose bisphosphate
carboxylase (Rubisco) plays an important role in the
Calvin reductive pentose phosphate pathway. It catalyzes
the primary CO2 fixation step. Rubisco is activated by
carbamylation of an active site lysine, stabilized by a
divalent cation, which then catalyzes the proton
abstraction from the substrate ribulose 1,5 bisphosphate
(RuBP) and leads to the formation of two molecules of
3-phosphoglycerate. Members of the Rubisco family can be
divided into 4 subgroups, Form I-IV, which differ in
their taxonomic distribution and subunit composition.
Form I-III have Rubisco activity, while Form IV, also
called Rubisco-like proteins (RLP), are missing critical
active site residues and therefore do not catalyze CO2
fixation. They are believed to utilize a related
enzymatic mechanism, but have divergent functions, like
for example 2,3-diketo-5-methylthiopentyl-1-phosphate
enolase or 5-methylthio-d-ribulose 1-phosphate
isomerase.
Length = 367
Score = 35.2 bits (82), Expect = 0.054
Identities = 44/177 (24%), Positives = 63/177 (35%), Gaps = 48/177 (27%)
Query: 247 QLCKQAVSQARAGADVV--------SPSDMMDGRVGAIRAALDAEGFQHVSIMSYTAKYA 298
+L + A A G D++ P + RV A A+
Sbjct: 147 ELAELAYELALGGIDLIKDDELLADQPYAPFEERVRACMEAV------------------ 188
Query: 299 SSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQAD--ESEGADILLVKPGLPYLD 356
R A N G K Y N + L +AD GA+ LL+ P L LD
Sbjct: 189 -------RRA---NEETGRKTLYAPNITGDPDELRR-RADRAVEAGANALLINPNLVGLD 237
Query: 357 VIRLLRDKYPLPIAA-YQVSGEYSMIKAGGALKMIDEQRVMMESLMCLRRAGADIIL 412
+R L + LPI A +G S G+ +++ LM R AGAD ++
Sbjct: 238 ALRALAEDPDLPIMAHPAFAGALSRSPDYGS------HFLLLGKLM--RLAGADAVI 286
>gnl|CDD|177622 PHA03386, P10, fibrous body protein; Provisional.
Length = 94
Score = 30.7 bits (69), Expect = 0.29
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|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 = 32.8 bits (75), Expect = 0.38
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|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 32.4 bits (73), Expect = 0.48
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|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 = 0.58
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|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 = 32.1 bits (73), Expect = 0.58
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|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 32.2 bits (73), Expect = 0.61
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|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 32.0 bits (73), Expect = 0.73
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|236321 PRK08645, PRK08645, bifunctional homocysteine
S-methyltransferase/5,10-methylenetetrahydrofolate
reductase protein; Reviewed.
Length = 612
Score = 31.4 bits (72), Expect = 1.1
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 18/85 (21%)
Query: 330 EALVEAQADESEGADILLVK--PGLPYLD-VIRLLRDKYPLPIAAYQVSGEYSMIKAGGA 386
+AL+E EG D LL++ L L + R+K LPI A E + + G +
Sbjct: 132 DALLE------EGVDGLLLETFYDLEELLLALEAAREKTDLPIIAQVAFHEDGVTQNGTS 185
Query: 387 LKMIDEQRVMMESLMCLRRAGADII 411
L+ ++ L AGAD++
Sbjct: 186 LEEALKE---------LVAAGADVV 201
>gnl|CDD|139164 PRK12700, flgH, flagellar basal body L-ring protein; Reviewed.
Length = 230
Score = 30.8 bits (69), Expect = 1.1
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|173975 cd08210, RLP_RrRLP, Ribulose bisphosphate carboxylase like proteins
(RLPs) similar to R.rubrum RLP. RLP from Rhodospirillum
rubrum plays a role in an uncharacterized sulfur salvage
pathway and has been shown to catalyze a novel
isomerization reaction that converts
5-methylthio-d-ribulose 1-phosphate to a 3:1 mixture of
1-methylthioxylulose 5-phosphate and
1-methylthioribulose 5-phosphate.
Length = 364
Score = 31.1 bits (71), Expect = 1.2
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 302 YGPFREAL--------DSNPRFGDKKTYQMN-PANYREALVEAQADESEGADILLVKPGL 352
+ PF E + ++N G + Y N + L A+ + GA +L+ PGL
Sbjct: 169 FAPFEERVKACQEAVAEANAETGGRTLYAPNVTGPPTQLLERARFAKEAGAGGVLIAPGL 228
Query: 353 PYLDVIRLLRDKYP-LPIAA 371
LD R L + + LPI A
Sbjct: 229 TGLDTFRELAEDFDFLPILA 248
>gnl|CDD|235826 PRK06549, PRK06549, acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Validated.
Length = 130
Score = 29.4 bits (66), Expect = 1.8
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|223237 COG0159, TrpA, Tryptophan synthase alpha chain [Amino acid
transport and metabolism].
Length = 265
Score = 30.3 bits (69), Expect = 1.9
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|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 = 30.2 bits (67), Expect = 2.1
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|216368 pfam01213, CAP_N, Adenylate cyclase associated (CAP) N terminal.
Length = 313
Score = 29.8 bits (67), Expect = 2.5
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|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 = 3.0
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|235906 PRK07003, PRK07003, DNA polymerase III subunits gamma and tau;
Validated.
Length = 830
Score = 29.8 bits (67), Expect = 3.3
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|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated.
Length = 484
Score = 29.5 bits (67), Expect = 3.5
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|173870 cd08505, PBP2_NikA_DppA_OppA_like_18, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 528
Score = 29.6 bits (67), Expect = 3.9
Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 10/84 (11%)
Query: 303 GPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEGADILLVKPG--LPYLD--VI 358
GP+ L N + NP NYR + + + LL G LP++D V
Sbjct: 170 GPYM--LTENNP-NSRMVLVRNP-NYRGEVYPFEGSADDDQAGLLADAGKRLPFIDRIVF 225
Query: 359 RLLRDKYPLPIAAYQVSGEYSMIK 382
L ++ P + Q G Y +
Sbjct: 226 SLEKEAQPRWLKFLQ--GYYDVSG 247
>gnl|CDD|223037 PHA03301, PHA03301, envelope glycoprotein L; Provisional.
Length = 226
Score = 29.1 bits (65), Expect = 4.2
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 = 27.9 bits (62), Expect = 8.0
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|223254 COG0176, MipB, Transaldolase [Carbohydrate transport and
metabolism].
Length = 239
Score = 28.8 bits (65), Expect = 4.3
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|171499 PRK12438, PRK12438, hypothetical protein; Provisional.
Length = 991
Score = 29.4 bits (66), Expect = 4.4
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 81 APPVPPKPAAPAGTPVVPSLP 101
PP PP+ P T P+ P
Sbjct: 919 GPPAPPQAVPPPRTTQPPAAP 939
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 29.4 bits (66), Expect = 4.7
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|234321 TIGR03708, poly_P_AMP_trns, polyphosphate:AMP phosphotransferase.
Members of this protein family contain a domain
duplication. The characterized member from Acinetobacter
johnsonii is polyphosphate:AMP phosphotransferase (PAP),
which can transfer the terminal phosphate from poly(P)
to AMP, yielding ADP. In the opposite direction, this
enzyme can synthesize poly(P). Each domain of this
protein family is homologous to polyphosphate kinase, an
enzyme that can run in the forward direction to extend a
polyphosphate chain with a new terminal phosphate from
ATP, or in reverse to make ATP (or GTP) from ADP (or
GDP) [Central intermediary metabolism, Phosphorus
compounds].
Length = 493
Score = 29.2 bits (66), Expect = 4.9
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 307 EALDSNPRFGDKKTYQMNPANYREALVEAQAD--ESEGADILLVKPGL 352
E+ + DK TY+ + REAL++ Q + ES G ++++ G
Sbjct: 2 ESAELGHSL-DKATYKKQVPDLREALLDLQYELLESAGFPVIILIEGW 48
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.1 bits (65), Expect = 5.4
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 = 28.8 bits (64), Expect = 8.3
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|220213 pfam09377, SBDS_C, SBDS protein C-terminal domain. This family is
highly conserved in species ranging from archaea to
vertebrates and plants. The family contains several
Shwachman-Bodian-Diamond syndrome (SBDS) proteins from
both mouse and humans. Shwachman-Diamond syndrome is an
autosomal recessive disorder with clinical features that
include pancreatic exocrine insufficiency,
haematological dysfunction and skeletal abnormalities.
Members of this family play a role in RNA metabolism.
Length = 126
Score = 27.6 bits (62), Expect = 5.6
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 355 LDVIRLLRDKYPLPIA 370
L+VI+ L++K +PIA
Sbjct: 50 LEVIKKLQEKQIIPIA 65
>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 = 5.9
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 74 VAGNIPEAPPVPPKPAAPAG 93
+A N+ EAPP+ PKP +
Sbjct: 268 LATNVAEAPPMRPKPLSQDE 287
>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 = 28.7 bits (64), Expect = 6.1
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|185364 PRK15467, PRK15467, ethanolamine utilization protein EutP;
Provisional.
Length = 158
Score = 28.0 bits (62), Expect = 6.6
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|236255 PRK08385, PRK08385, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 278
Score = 28.5 bits (64), Expect = 7.2
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 252 AVSQARAGADVVSPSDMMDGRVGAIRAALDAEG 284
A+ A+AGAD++ +M + + AL EG
Sbjct: 195 ALKAAKAGADIIMLDNMTPEEIREVIEALKREG 227
>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 = 28.5 bits (64), Expect = 7.7
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|235953 PRK07188, PRK07188, nicotinate phosphoribosyltransferase;
Provisional.
Length = 352
Score = 28.4 bits (64), Expect = 8.0
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 273 VGAIRAALDAEGFQHVSI 290
+ A+R ALD G +HV I
Sbjct: 266 IKALRKALDENGGKHVKI 283
>gnl|CDD|221931 pfam13136, DUF3984, Protein of unknown function (DUF3984). This
family of proteins is functionally uncharacterized. This
family of proteins is found in eukaryotes. Proteins in
this family are typically between 393 and 442 amino
acids in length.
Length = 301
Score = 28.1 bits (63), Expect = 8.4
Identities = 17/74 (22%), Positives = 25/74 (33%), Gaps = 15/74 (20%)
Query: 59 TKKLGISDAECEAAVVAGNIPEAPPVPPKPA------APAGTPVV--PSLPLSRRPRRNR 110
T + + D + E P PP + P TP + S SR R
Sbjct: 18 TSRFPLDDDDEERD------YSYAPHPPTTSYLSSKSVP-TTPGILSHSRSPSRSRLHKR 70
Query: 111 KSPAMRASFQETNL 124
K + R+ +T L
Sbjct: 71 KKSSRRSPMSDTLL 84
>gnl|CDD|237782 PRK14666, uvrC, excinuclease ABC subunit C; Provisional.
Length = 694
Score = 28.3 bits (63), Expect = 8.7
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 = 9.6
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|217310 pfam02993, MCPVI, Minor capsid protein VI. This minor capsid
protein may act as a link between the external capsid
and the internal DNA-protein core. The C-terminal 11
residues may function as a protease cofactor leading to
enzyme activation.
Length = 238
Score = 27.8 bits (62), Expect = 9.7
Identities = 12/38 (31%), Positives = 15/38 (39%)
Query: 72 AVVAGNIPEAPPVPPKPAAPAGTPVVPSLPLSRRPRRN 109
AV A + P +PP P P PS + R R
Sbjct: 172 AVPAIDTPVTLELPPAPQPPPPVVPQPSTMVVHRRSRI 209
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.135 0.401
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: 22,254,429
Number of extensions: 2201795
Number of successful extensions: 3168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3038
Number of HSP's successfully gapped: 108
Length of query: 428
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 328
Effective length of database: 6,502,202
Effective search space: 2132722256
Effective search space used: 2132722256
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.6 bits)