RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 013861
(435 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 = 592 bits (1530), Expect = 0.0
Identities = 194/329 (58%), Positives = 244/329 (74%), Gaps = 10/329 (3%)
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 ADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRV 402
AD+++ VKPG+PYLD+IR ++D++ +P AYQVSGEY+M+KA +DE +V
Sbjct: 239 ADMVM-------VKPGMPYLDIIRRVKDEFGVPTFAYQVSGEYAMLKAAAQNGWLDEDKV 291
Query: 403 MMESLMCLRRAGADIILTYFALQAARCLC 431
M+ESL+ +RAGAD ILTYFA +AA L
Sbjct: 292 MLESLLAFKRAGADGILTYFAKEAAEWLR 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 = 564 bits (1456), Expect = 0.0
Identities = 191/330 (57%), Positives = 246/330 (74%), Gaps = 11/330 (3%)
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 EGADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQ 400
EGAD+++ VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA IDE+
Sbjct: 239 EGADMVM-------VKPALPYLDIIRRVKDEFDLPVAAYQVSGEYAMIKAAAQNGWIDEE 291
Query: 401 RVMMESLMCLRRAGADIILTYFALQAARCL 430
RV++ESL+ ++RAGAD+I+TYFA +AAR L
Sbjct: 292 RVVLESLLSIKRAGADLIITYFAKEAARWL 321
>gnl|CDD|215945 pfam00490, ALAD, Delta-aminolevulinic acid dehydratase.
Length = 322
Score = 562 bits (1451), Expect = 0.0
Identities = 188/331 (56%), Positives = 241/331 (72%), Gaps = 10/331 (3%)
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 SEGADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDE 399
EGAD+++ VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA +DE
Sbjct: 239 EEGADMVM-------VKPALPYLDIIRRVKDRFDLPVAAYQVSGEYAMIKAAAQNGWLDE 291
Query: 400 QRVMMESLMCLRRAGADIILTYFALQAARCL 430
+RV++ESL+ ++RAGAD+I+TYFA +AAR L
Sbjct: 292 KRVVLESLLSIKRAGADLIITYFAKEAARWL 322
>gnl|CDD|236450 PRK09283, PRK09283, delta-aminolevulinic acid dehydratase;
Validated.
Length = 323
Score = 542 bits (1400), Expect = 0.0
Identities = 188/328 (57%), Positives = 237/328 (72%), Gaps = 12/328 (3%)
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 ADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRV 402
AD+++ VKP LPYLD+IR ++D++ LP+AAYQVSGEY+MIKA IDE+RV
Sbjct: 242 ADMVM-------VKPALPYLDIIRRVKDEFNLPVAAYQVSGEYAMIKAAAQNGWIDEERV 294
Query: 403 MMESLMCLRRAGADIILTYFALQAARCL 430
++ESL+ ++RAGAD ILTYFA AAR L
Sbjct: 295 VLESLLSIKRAGADGILTYFAKDAARWL 322
>gnl|CDD|223191 COG0113, HemB, Delta-aminolevulinic acid dehydratase [Coenzyme
metabolism].
Length = 330
Score = 508 bits (1310), Expect = 0.0
Identities = 180/330 (54%), Positives = 236/330 (71%), Gaps = 9/330 (2%)
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 EGADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQ 400
EGADIL+ VKP LPYLD+IR +++++ LP+AAYQVSGEY+MIKA IDE+
Sbjct: 245 EGADILM-------VKPALPYLDIIRRVKEEFNLPVAAYQVSGEYAMIKAAAQNGWIDEE 297
Query: 401 RVMMESLMCLRRAGADIILTYFALQAARCL 430
+V++ESL ++RAGAD+I+TYFA + A L
Sbjct: 298 KVVLESLTSIKRAGADLIITYFAKEVAEWL 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 = 471 bits (1215), Expect = e-167
Identities = 178/325 (54%), Positives = 228/325 (70%), Gaps = 12/325 (3%)
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 LLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMIDEQRVMME 405
L+ VKP L YLD+IR +R+++ LP+AAY VSGEY+MIKA IDE+RV++E
Sbjct: 237 LM-------VKPALAYLDIIRDVRERFDLPVAAYNVSGEYAMIKAAAKNGWIDEERVVLE 289
Query: 406 SLMCLRRAGADIILTYFALQAARCL 430
SL ++RAGAD+I+TYFA AAR L
Sbjct: 290 SLTSIKRAGADLIITYFAKDAARWL 314
>gnl|CDD|172020 PRK13384, PRK13384, delta-aminolevulinic acid dehydratase;
Provisional.
Length = 322
Score = 347 bits (892), Expect = e-118
Identities = 149/332 (44%), Positives = 214/332 (64%), Gaps = 13/332 (3%)
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 DESEGADILLFSVLGSQVKPGLPYLDVIRLLRDKYPLPIAAYQVSGEYSMIKAGGALKMI 397
DE+EGADIL+ VKPG PYLDV+ LR + LP+AAYQV GEY+MIK +
Sbjct: 238 DEAEGADILM-------VKPGTPYLDVLSRLRQETHLPLAAYQVGGEYAMIKFAALAGAL 290
Query: 398 DEQRVMMESLMCLRRAGADIILTYFALQAARC 429
DE+ V+ E+L L+RAGAD+I++Y+A Q A+
Sbjct: 291 DERAVVTETLGGLKRAGADLIVSYYAKQYAQW 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 = 301 bits (773), Expect = e-100
Identities = 139/323 (43%), Positives = 201/323 (62%), Gaps = 24/323 (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-VSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQADESEGA 343
+ VS+MSY+AK+AS YGPFR+A S P FGD++ YQ+ P AL + D SEGA
Sbjct: 180 LGNKVSVMSYSAKFASCLYGPFRDAACSAPSFGDRRCYQLPPGARGLALRAVERDVSEGA 239
Query: 344 DILLFSVLGSQVKPGLPYLDVIRLLRDKYP-LPIAAYQVSGEYSMIKAGGALKMIDEQRV 402
D+++ VKPG PYLD++R +DK+P LP+A Y VSGEY+M+ A D +R
Sbjct: 240 DMIM-------VKPGTPYLDIVREAKDKHPDLPLAVYHVSGEYAMLHAAAEAGAFDLKRA 292
Query: 403 MMESLMCLRRAGADIILTYFALQ 425
++E++ RRAGADII+TYF +
Sbjct: 293 VLEAMTGFRRAGADIIITYFTPE 315
>gnl|CDD|236321 PRK08645, PRK08645, bifunctional homocysteine
S-methyltransferase/5,10-methylenetetrahydrofolate
reductase protein; Reviewed.
Length = 612
Score = 34.1 bits (79), Expect = 0.17
Identities = 24/90 (26%), Positives = 36/90 (40%), Gaps = 21/90 (23%)
Query: 330 EALVEAQADESEGADILLFSVLGSQVKPGLPYLD-VIRLLRDKYPLPIAAYQVSGEYSMI 388
+AL+E EG D LL L L + R+K LPI A E +
Sbjct: 132 DALLE------EGVDGLLLETFYD-----LEELLLALEAAREKTDLPIIAQVAFHEDGVT 180
Query: 389 KAGGALKMIDEQRVMMESLMCLRRAGADII 418
+ G +L+ ++ L AGAD++
Sbjct: 181 QNGTSLEEALKE---------LVAAGADVV 201
>gnl|CDD|177622 PHA03386, P10, fibrous body protein; Provisional.
Length = 94
Score = 31.1 bits (70), Expect = 0.28
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 = 0.36
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|236560 PRK09549, mtnW, 2,3-diketo-5-methylthiopentyl-1-phosphate enolase;
Reviewed.
Length = 407
Score = 32.7 bits (75), Expect = 0.39
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 19/82 (23%)
Query: 342 GADILLFSVLGSQVKPGLPY-LDVIRLLR--DKYPLPIAAY-QVSGEYSMIKAGGALKMI 397
GAD LLF+V Y LDV++ L + P+PI A+ VSG Y+ G
Sbjct: 227 GADALLFNVFA--------YGLDVLQSLAEDPEIPVPIMAHPAVSGAYTPSPLYGI---- 274
Query: 398 DEQRVMMESLMCLRRAGADIIL 419
+++ L+ R AGAD L
Sbjct: 275 -SSPLLLGKLL--RYAGADFSL 293
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 32.4 bits (73), Expect = 0.47
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 = 0.56
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|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 32.2 bits (73), Expect = 0.58
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|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 = 0.60
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|236705 PRK10517, PRK10517, magnesium-transporting ATPase MgtA;
Provisional.
Length = 902
Score = 32.0 bits (73), Expect = 0.75
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|132375 TIGR03332, salvage_mtnW, 2,3-diketo-5-methylthiopentyl-1-phosphate
enolase. Members of this family are the methionine
salvage pathway enzyme
2,3-diketo-5-methylthiopentyl-1-phosphate enolase, a
homolog of RuBisCO. This protein family seems restricted
to Bacillus subtilis and close relatives, where two
separate proteins carry the enolase and phosphatase
activities that in other species occur in a single
protein, MtnC (TIGR01691) [Amino acid biosynthesis,
Aspartate family, Central intermediary metabolism,
Sulfur metabolism].
Length = 407
Score = 31.7 bits (72), Expect = 0.78
Identities = 35/108 (32%), Positives = 49/108 (45%), Gaps = 18/108 (16%)
Query: 316 GDKKTYQMNPANYREALVEAQADESE-GADILLFSVLGSQVKPGLPYLDVIRLLR--DKY 372
G K Y +N L + +E GAD+LLF+V LDV++ L D+
Sbjct: 205 GHKTLYAVNLTGRTFDLKDKAKRAAELGADVLLFNVFAYG-------LDVLQSLAEDDEI 257
Query: 373 PLPIAAY-QVSGEYSMIKAGGALKMIDEQRVMMESLMCLRRAGADIIL 419
P+PI A+ VSG Y+ G +++ L LR AGAD L
Sbjct: 258 PVPIMAHPAVSGAYTSSPFYGF-----SHSLLLGKL--LRYAGADFSL 298
>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|238192 cd00315, Cyt_C5_DNA_methylase, Cytosine-C5 specific DNA methylases;
Methyl transfer reactions play an important role in many
aspects of biology. Cytosine-specific DNA methylases are
found both in prokaryotes and eukaryotes. DNA
methylation, or the covalent addition of a methyl group
to cytosine within the context of the CpG dinucleotide,
has profound effects on the mammalian genome. These
effects include transcriptional repression via
inhibition of transcription factor binding or the
recruitment of methyl-binding proteins and their
associated chromatin remodeling factors, X chromosome
inactivation, imprinting and the suppression of
parasitic DNA sequences. DNA methylation is also
essential for proper embryonic development and is an
important player in both DNA repair and genome
stability.
Length = 275
Score = 30.7 bits (70), Expect = 1.2
Identities = 24/118 (20%), Positives = 43/118 (36%), Gaps = 40/118 (33%)
Query: 273 VGAIRAALDAEGFQHVSIMSYTAKYASSFYGPFREALDSNPRFGDKKTYQMNPANYREAL 332
+G R L+ GF+ V A++ +TY+ AN+ L
Sbjct: 10 IGGFRLGLEKAGFEIV---------AANEIDKSA-----------AETYE---ANFPNKL 46
Query: 333 VE------AQADESEGADILL-------FSVLGSQVKPGLP----YLDVIRLLRDKYP 373
+E + D D+L FS+ G + + ++IR+L++K P
Sbjct: 47 IEGDITKIDEKDFIPDIDLLTGGFPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKP 104
>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|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 = 30.6 bits (70), Expect = 1.8
Identities = 44/184 (23%), Positives = 63/184 (34%), Gaps = 55/184 (29%)
Query: 247 QLCKQAVSQARAGADVV--------SPSDMMDGRVGAIRAALDAEGFQHVSIMSYTAKYA 298
+L + A A G D++ P + RV A A+
Sbjct: 147 ELAELAYELALGGIDLIKDDELLADQPYAPFEERVRACMEAV------------------ 188
Query: 299 SSFYGPFREALDSNPRFGDKKTYQMNPANYREALVEAQAD--ESEGADILLFSVLGSQVK 356
R A N G K Y N + L +AD GA+ LL +
Sbjct: 189 -------RRA---NEETGRKTLYAPNITGDPDELRR-RADRAVEAGANALLIN------- 230
Query: 357 PGLPYLDVIRLLRDKYPLPIAA-YQVSGEYSMIKAGGALKMIDEQRVMMESLMCLRRAGA 415
P L LD +R L + LPI A +G S G+ +++ LM R AGA
Sbjct: 231 PNLVGLDALRALAEDPDLPIMAHPAFAGALSRSPDYGS------HFLLLGKLM--RLAGA 282
Query: 416 DIIL 419
D ++
Sbjct: 283 DAVI 286
>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 = 30.5 bits (68), Expect = 2.0
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 = 3.2
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|173974 cd08209, RLP_DK-MTP-1-P-enolase,
2,3-diketo-5-methylthiopentyl-1-phosphate enolase.
Ribulose bisphosphate carboxylase like proteins (RLPs)
similar to B. subtilis YkrW protein, have been
identified as 2,3-diketo-5-methylthiopentyl-1-phosphate
enolases. They catalyze the tautomerization of
2,3-diketo-5-methylthiopentane 1-phosphate (DK-MTP 1-P).
This is an important step in the methionine salvage
pathway in which 5-methylthio-D-ribose (MTR) derived
from 5'-methylthioadenosine is converted to methionine.
Length = 391
Score = 29.6 bits (67), Expect = 3.6
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 19/83 (22%)
Query: 341 EGADILLFSVLGSQVKPGLPY-LDVIRLLR--DKYPLPIAAY-QVSGEYSMIKAGGALKM 396
GA+ LLF+V Y LDV+ L + +PI A+ +G G
Sbjct: 216 AGANALLFNVFA--------YGLDVLEALASDPEINVPIFAHPAFAGALY----GSPDYG 263
Query: 397 IDEQRVMMESLMCLRRAGADIIL 419
I V++ +LM R AGAD +L
Sbjct: 264 IAAS-VLLGTLM--RLAGADAVL 283
>gnl|CDD|223037 PHA03301, PHA03301, envelope glycoprotein L; Provisional.
Length = 226
Score = 29.1 bits (65), Expect = 4.1
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 = 28.3 bits (63), Expect = 7.7
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 = 29.2 bits (66), 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 = 4.5
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 81 APPVPPKPAAPAGTPVVPSLP 101
PP PP+ P T P+ P
Sbjct: 919 GPPAPPQAVPPPRTTQPPAAP 939
>gnl|CDD|233717 TIGR02088, LEU3_arch, isopropylmalate/isohomocitrate
dehydrogenases. This model represents a group of
archaeal decarboxylating dehydrogenases which include
the leucine biosynthesis enzyme 3-isopropylmalate
dehydrogenase (LeuB, LEU3) and the methanogenic cofactor
CoB biosynthesis enzyme isohomocitrate dehydrogenase
(AksF). Both of these have been characterized in
Methanococcus janaschii. Non-methanogenic archaea have
only one hit to this model and presumably this is LeuB,
although phylogenetic trees cannot establish which gene
is which in the methanogens. The AksF gene is capable of
acting on isohomocitrate, iso(homo)2-citrate and
iso(homo)3-citrate in the successive elongation cycles
of coenzyme B (7-mercaptoheptanoyl-threonine phosphate).
This family is closely related to both the LeuB genes
found in TIGR00169 and the mitochondrial eukaryotic
isocitrate dehydratases found in TIGR00175. All of these
are included within the broader subfamily model,
pfam00180.
Length = 322
Score = 29.0 bits (65), Expect = 4.5
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 328 YREALVEAQADESEGADILLFSVLGSQVKPGLPYLDVIRLLRDKYPL 374
Y AL E +E AD +LF + + Y VI LR + L
Sbjct: 43 YGSALPEDTLEEIRKADAILFGAVTT--PANPGYKSVIVTLRKELDL 87
>gnl|CDD|227315 COG4982, COG4982, 3-oxoacyl-[acyl-carrier protein].
Length = 866
Score = 29.4 bits (66), Expect = 4.6
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|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.5 bits (66), 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 = 28.8 bits (64), Expect = 8.0
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 = 5.5
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 362 LDVIRLLRDKYPLPIA 377
L+VI+ L++K +PIA
Sbjct: 50 LEVIKKLQEKQIIPIA 65
>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 = 5.8
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|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 = 6.0
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 74 VAGNIPEAPPVPPKPAAPAG 93
+A N+ EAPP+ PKP +
Sbjct: 268 LATNVAEAPPMRPKPLSQDE 287
>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|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 = 28.5 bits (64), Expect = 7.3
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 307 EALDSNPRFGDKKTYQMNPANYREALVEAQADESEGADI 345
E+ + DK TY+ + REAL++ Q + E A
Sbjct: 2 ESAELGHSL-DKATYKKQVPDLREALLDLQYELLESAGF 39
>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 = 7.6
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 = 28.7 bits (64), Expect = 8.1
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|235953 PRK07188, PRK07188, nicotinate phosphoribosyltransferase;
Provisional.
Length = 352
Score = 28.4 bits (64), Expect = 8.1
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 273 VGAIRAALDAEGFQHVSI 290
+ A+R ALD G +HV I
Sbjct: 266 IKALRKALDENGGKHVKI 283
>gnl|CDD|202701 pfam03610, EIIA-man, PTS system fructose IIA component.
Length = 115
Score = 27.2 bits (61), Expect = 8.5
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 323 MNPANYREALVEAQADESEGADILLFSVLGSQVKPGLPYLDVIRLLRDK 371
E +VEA A+ G +L+ LG G P+ L DK
Sbjct: 37 EGIGTLAEKIVEAIAELDSGDGVLVLVDLGG----GTPFNAAALELLDK 81
>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 = 8.7
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|223068 PHA03384, PHA03384, early DNA-binding protein E2A; Provisional.
Length = 445
Score = 28.1 bits (63), Expect = 9.7
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 = 9.8
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 0.400
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: 22,574,894
Number of extensions: 2230237
Number of successful extensions: 3183
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3044
Number of HSP's successfully gapped: 106
Length of query: 435
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 335
Effective length of database: 6,502,202
Effective search space: 2178237670
Effective search space used: 2178237670
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)