RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7342
(338 letters)
>gnl|CDD|238451 cd00886, MogA_MoaB, MogA_MoaB family. Members of this family are
involved in biosynthesis of the molybdenum cofactor
(MoCF) an essential cofactor of a diverse group of redox
enzymes. MoCF biosynthesis is an evolutionarily
conserved pathway present in eubacteria, archaea, and
eukaryotes. MoCF contains a tricyclic pyranopterin,
termed molybdopterin (MPT). MogA, together with MoeA,
is responsible for the metal incorporation into MPT, the
third step in MoCF biosynthesis. The plant homolog Cnx1
is a MoeA-MogA fusion protein. The mammalian homolog
gephyrin is a MogA-MoeA fusion protein, that plays a
critical role in postsynaptic anchoring of inhibitory
glycine receptors and major GABAa receptor subtypes. In
contrast, MoaB shows high similarity to MogA, but little
is known about its physiological role. All well studied
members of this family form highly stable trimers.
Length = 152
Score = 143 bits (363), Expect = 3e-42
Identities = 50/107 (46%), Positives = 68/107 (63%), Gaps = 1/107 (0%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIF 265
VSD E+ED+SGP L +LL+E H + VPD+ +EI++ L W D+ VDLI
Sbjct: 8 VSDTRSAGEAEDRSGPALVELLEEAG-HEVVAYEIVPDDKDEIREALIEWADEDGVDLIL 66
Query: 266 TSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
T+GGTG++PRDVTPEA L+DK++P + L+ T AMLSR
Sbjct: 67 TTGGTGLAPRDVTPEATRPLLDKELPGFGEAFRALSLEETGTAMLSR 113
>gnl|CDD|223595 COG0521, MoaB, Molybdopterin biosynthesis enzymes [Coenzyme
metabolism].
Length = 169
Score = 115 bits (289), Expect = 4e-31
Identities = 50/108 (46%), Positives = 68/108 (62%), Gaps = 3/108 (2%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIF 265
VSDR E EDKSGPLL +LL+E H T VPD+ E+I+ L +D VD++
Sbjct: 15 VSDRRSTGEYEDKSGPLLVELLEEAG-HNVAAYTIVPDDKEQIRATLIALID-EDVDVVL 72
Query: 266 TSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLK-VTPLAMLSR 312
T+GGTG++PRDVTPEA L DK++P + + L+ + P A+LSR
Sbjct: 73 TTGGTGITPRDVTPEATRPLFDKEIPGFGELFRRLSLEEIGPTAILSR 120
>gnl|CDD|235138 PRK03604, moaC, bifunctional molybdenum cofactor biosynthesis
protein MoaC/MogA; Provisional.
Length = 312
Score = 111 bits (281), Expect = 2e-28
Identities = 44/108 (40%), Positives = 66/108 (61%), Gaps = 4/108 (3%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQE-DFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLI 264
+SD ED+SG L+ + L+E F+ +H T +PDE EI + W+ + LI
Sbjct: 163 LSDSIAAGTKEDRSGKLIVEGLEEAGFEVSHY--TIIPDEPAEIAAAVAAWIAEG-YALI 219
Query: 265 FTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
T+GGTG+ PRDVTPEA+ L+++++P I +++ G TP AMLSR
Sbjct: 220 ITTGGTGLGPRDVTPEALAPLLERRLPGIAEALRSWGQGRTPTAMLSR 267
>gnl|CDD|215376 PLN02699, PLN02699, Bifunctional molybdopterin
adenylyltransferase/molybdopterin molybdenumtransferase.
Length = 659
Score = 102 bits (255), Expect = 6e-24
Identities = 50/111 (45%), Positives = 68/111 (61%), Gaps = 4/111 (3%)
Query: 206 VSDRCFNKESEDKSGPLLAQL---LQEDFQHAHILKTC-VPDEMEEIKDKLKYWVDQSKV 261
VSD + D+SGP + E A ++ T VPD++E+IKD L+ W D ++
Sbjct: 466 VSDTVSSGAGPDRSGPRAVSVVNSSSEKLGGAKVVATAVVPDDVEKIKDVLQKWSDIDRM 525
Query: 262 DLIFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
DLI T GGTG +PRDVTPEA +I K+ P + +++ E LKVTP AMLSR
Sbjct: 526 DLILTLGGTGFTPRDVTPEATKEVIQKETPGLLYVMMQESLKVTPFAMLSR 576
Score = 29.4 bits (66), Expect = 3.6
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 243 DEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRD-VTP 279
D+ EE++ L + S VD++ TSGG M RD V P
Sbjct: 233 DDEEELERILDEAI-SSGVDILLTSGGVSMGDRDFVKP 269
>gnl|CDD|181837 PRK09417, mogA, molybdenum cofactor biosynthesis protein MogA;
Provisional.
Length = 193
Score = 93.5 bits (233), Expect = 9e-23
Identities = 43/111 (38%), Positives = 59/111 (53%), Gaps = 7/111 (6%)
Query: 206 VSDRCFNKESEDKSGPL----LAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKV 261
+SDR + EDK P LA L F+ I +PDE + I+ L VD+
Sbjct: 11 ISDRASSGVYEDKGIPALEEWLASALTSPFE---IETRLIPDEQDLIEQTLIELVDEMGC 67
Query: 262 DLIFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
DL+ T+GGTG + RDVTPEA + DK++P ++ LK P A+LSR
Sbjct: 68 DLVLTTGGTGPARRDVTPEATLAVADKEMPGFGEQMRQISLKFVPTAILSR 118
>gnl|CDD|214856 smart00852, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 138
Score = 89.2 bits (222), Expect = 8e-22
Identities = 33/109 (30%), Positives = 57/109 (52%), Gaps = 5/109 (4%)
Query: 206 VSDRCFN-KESEDKSGPLLAQLLQED-FQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDL 263
D + + D +GP+LA LL+E + ++ PD+ E I++ L+ + + D+
Sbjct: 5 TGDELLSGGQIRDSNGPMLAALLRELGIEVVRVVVVGGPDDPEAIREALREALAE--ADV 62
Query: 264 IFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
+ T+GGTG P D+TPEA+ L +++ ++ G PLA LS
Sbjct: 63 VITTGGTGPGPDDLTPEALAELGGRELLGHGVAMRPGG-PPGPLANLSG 110
>gnl|CDD|216230 pfam00994, MoCF_biosynth, Probable molybdopterin binding domain.
This domain is found a variety of proteins involved in
biosynthesis of molybdopterin cofactor. The domain is
presumed to bind molybdopterin. The structure of this
domain is known, and it forms an alpha/beta structure.
In the known structure of Gephyrin this domain mediates
trimerisation.
Length = 140
Score = 85.8 bits (213), Expect = 2e-20
Identities = 35/89 (39%), Positives = 49/89 (55%), Gaps = 3/89 (3%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIF 265
D + + D +GPLLA LL+E I VPD+ E IK+ L D + D++
Sbjct: 5 TGDELLSGQIYDTNGPLLAALLRE-AGAEVIRYGIVPDDPEAIKEALAAAAD--EADVVI 61
Query: 266 TSGGTGMSPRDVTPEAMNHLIDKKVPCIE 294
T+GGTG P DVTPEA+ L +++P E
Sbjct: 62 TTGGTGPGPDDVTPEALAELGGRELPGGE 90
>gnl|CDD|232858 TIGR00177, molyb_syn, molybdenum cofactor synthesis domain. The
Drosophila protein cinnamon, the Arabidopsis protein
cnx1, and rat protein gephyrin each have one domain like
MoeA and one like MoaB and Mog. These domains are,
however, distantly related to each other, as captured by
This model. Gephyrin is unusual in that it seems to be a
tubulin-binding neuroprotein involved in the clustering
of both blycine receptors and GABA receptors, rather
than a protein of molybdenum cofactor biosynthesis.
Length = 144
Score = 83.5 bits (207), Expect = 1e-19
Identities = 42/114 (36%), Positives = 59/114 (51%), Gaps = 19/114 (16%)
Query: 206 VSDRCFNKES-------EDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQ 258
D D +GPLLA LL+E + L VPD+ EEI++ L+ VD+
Sbjct: 8 TGDELVEPGQPLEPGQIYDSNGPLLAALLEEAGFNVSRLGI-VPDDPEEIREILRKAVDE 66
Query: 259 SKVDLIFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSR 312
D++ T+GGTG+ PRDVTPEA+ L +K++P G A+LSR
Sbjct: 67 --ADVVLTTGGTGVGPRDVTPEALEELGEKEIP---------GFGEYFTAVLSR 109
>gnl|CDD|238387 cd00758, MoCF_BD, MoCF_BD: molybdenum cofactor (MoCF) binding
domain (BD). This domain is found a variety of proteins
involved in biosynthesis of molybdopterin cofactor, like
MoaB, MogA, and MoeA. The domain is presumed to bind
molybdopterin.
Length = 133
Score = 82.4 bits (204), Expect = 2e-19
Identities = 36/108 (33%), Positives = 51/108 (47%), Gaps = 13/108 (12%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIF 265
VSD + ED +GP L LL++ I VPD+ + I+ L + DL+
Sbjct: 7 VSDELSQGQIEDTNGPALEALLEDLG-CEVIYAGVVPDDADSIRAALIEASRE--ADLVL 63
Query: 266 TSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTPLAMLSRF 313
T+GGTG+ RDVTPEA+ L +++ K LA SR
Sbjct: 64 TTGGTGVGRRDVTPEALAELGEREAH----------GKGVALAPGSRT 101
>gnl|CDD|131715 TIGR02667, moaB_proteo, molybdenum cofactor biosynthesis protein B,
proteobacterial. This model represents the MoaB protein
molybdopterin biosynthesis regions in Proteobacteria.
This crystallized but incompletely characterized protein
is thought to be involved in, though not required for,
early steps in molybdopterin biosynthesis. It may bind a
molybdopterin precursor. A distinctive conserved motif
PCN near the C-terminus helps distinguish this clade
from other homologs, including sets of proteins
designated MogA [Biosynthesis of cofactors, prosthetic
groups, and carriers, Molybdopterin].
Length = 163
Score = 73.6 bits (181), Expect = 9e-16
Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 3/86 (3%)
Query: 206 VSDRCFNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIF 265
VSD E +D SG L + L E + V D++ +I+ ++ W+ V +I
Sbjct: 12 VSDT--RTEEDDTSGQYLVERLTEAGHRLA-DRAIVKDDIYQIRAQVSAWIADPDVQVIL 68
Query: 266 TSGGTGMSPRDVTPEAMNHLIDKKVP 291
+GGTG + RDVTPEA+ L DK V
Sbjct: 69 ITGGTGFTGRDVTPEALEPLFDKTVE 94
>gnl|CDD|238452 cd00887, MoeA, MoeA family. Members of this family are involved in
biosynthesis of the molybdenum cofactor (MoCF), an
essential cofactor of a diverse group of redox enzymes.
MoCF biosynthesis is an evolutionarily conserved pathway
present in eubacteria, archaea and eukaryotes. MoCF
contains a tricyclic pyranopterin, termed molybdopterin
(MPT). MoeA, together with MoaB, is responsible for the
metal incorporation into MPT, the third step in MoCF
biosynthesis. The plant homolog Cnx1 is a MoeA-MogA
fusion protein. The mammalian homolog gephyrin is a
MogA-MoeA fusion protein, that plays a critical role in
postsynaptic anchoring of inhibitory glycine receptors
and major GABAa receptor subtypes.
Length = 394
Score = 51.0 bits (123), Expect = 4e-07
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 220 GPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTP 279
+LA LL+E L VPD+ E +++ L+ ++++ D++ TSGG + D
Sbjct: 197 SYMLAALLRELGAEVVDLGI-VPDDPEALREALEEALEEA--DVVITSGGVSVGDYDFVK 253
Query: 280 EAMNHL 285
E + L
Sbjct: 254 EVLEEL 259
>gnl|CDD|223986 COG1058, CinA, Predicted nucleotide-utilizing enzyme related to
molybdopterin-biosynthesis enzyme MoeA [General function
prediction only].
Length = 255
Score = 47.6 bits (114), Expect = 3e-06
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 9/81 (11%)
Query: 217 DKSGPLLAQLLQE-DFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPR 275
D + LA L E A I T V D + I + L+ + D++ T+GG G +
Sbjct: 20 DTNAAFLADELTELGVDLARI--TTVGDNPDRIVEALREAS--ERADVVITTGGLGPTHD 75
Query: 276 DVTPEAM-NHLIDKKVPCIEH 295
D+T EA+ L P +
Sbjct: 76 DLTAEAVAKAL---GRPLVLD 93
>gnl|CDD|223380 COG0303, MoeA, Molybdopterin biosynthesis enzyme [Coenzyme
metabolism].
Length = 404
Score = 43.8 bits (104), Expect = 9e-05
Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 217 DKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRD 276
D + +LA LL+ L VPD+ E +++ ++ + + D+I TSGG + D
Sbjct: 202 DSNSYMLAALLERAGGEVVDLGI-VPDDPEALREAIEKALSE--ADVIITSGGVSVGDAD 258
Query: 277 VTPEAMN 283
A+
Sbjct: 259 YVKAALE 265
>gnl|CDD|239599 cd03522, MoeA_like, MoeA_like. This domain is similar to a domain
found in a variety of proteins involved in biosynthesis
of molybdopterin cofactor, like MoaB, MogA, and MoeA.
There this domain is presumed to bind molybdopterin. The
exact function of this subgroup is unknown.
Length = 312
Score = 39.8 bits (94), Expect = 0.001
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 211 FNKESEDKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGT 270
+ EDK GP+L L + + VP + I + ++ +L+ +GG
Sbjct: 172 YGGRIEDKFGPVLRARL-AALGVELVEQVIVPHDEAAIAAAIAEALEAGA-ELLILTGGA 229
Query: 271 GMSPRDVTPEAM 282
+ P DVTP A+
Sbjct: 230 SVDPDDVTPAAI 241
>gnl|CDD|238450 cd00885, cinA, Competence-damaged protein. CinA is the first gene
in the competence- inducible (cin) operon and is thought
to be specifically required at some stage in the process
of transformation. This domain is closely related to a
domain, found in a variety of proteins involved in
biosynthesis of molybdopterin cofactor, where the domain
is presumed to bind molybdopterin.
Length = 170
Score = 38.2 bits (90), Expect = 0.002
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 5/67 (7%)
Query: 217 DKSGPLLAQLLQE-DFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPR 275
D + LA+ L E + + T V D+ + I + L+ +++ DL+ T+GG G +
Sbjct: 18 DTNAAFLAKELAELGIEVYRV--TVVGDDEDRIAEALRRASERA--DLVITTGGLGPTHD 73
Query: 276 DVTPEAM 282
D+T EA+
Sbjct: 74 DLTREAV 80
>gnl|CDD|179250 PRK01215, PRK01215, competence damage-inducible protein A;
Provisional.
Length = 264
Score = 36.5 bits (85), Expect = 0.013
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 239 TCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEA 281
T V D++EEI + +D++ D++ ++GG G + D T E
Sbjct: 43 TVVMDDIEEIVSAFREAIDRA--DVVVSTGGLGPTYDDKTNEG 83
>gnl|CDD|237732 PRK14498, PRK14498, putative molybdopterin biosynthesis protein
MoeA/LysR substrate binding-domain-containing protein;
Provisional.
Length = 633
Score = 35.6 bits (83), Expect = 0.039
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 241 VPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVT 278
VPD+ EE++ L+ + + DL+ SGGT DVT
Sbjct: 235 VPDDEEELEAALRKALK--ECDLVLLSGGTSAGAGDVT 270
>gnl|CDD|172968 PRK14497, PRK14497, putative molybdopterin biosynthesis protein
MoeA/unknown domain fusion protein; Provisional.
Length = 546
Score = 33.2 bits (76), Expect = 0.19
Identities = 22/92 (23%), Positives = 42/92 (45%), Gaps = 15/92 (16%)
Query: 216 EDKSGPLLAQLLQEDFQHAHILK-TCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSP 274
E L ++L E ++ I+ + + D+ E IK+++K + D++ +GGT
Sbjct: 205 ESNLHYLYSKLKSEGYK---IVGLSLLSDDKESIKNEIKRAIS--VADVLILTGGTSAGE 259
Query: 275 RDVTPEAMNHLIDKKVPCIEHIIQTEGLKVTP 306
+D +A+ L + I GLK+ P
Sbjct: 260 KDFVHQAIRELGN---------IIVHGLKIKP 282
>gnl|CDD|99807 cd06211, phenol_2-monooxygenase_like, Phenol 2-monooxygenase
(phenol hydroxylase) is a flavoprotein monooxygenase,
able to use molecular oxygen as a substrate in the
microbial degredation of phenol. This protein is encoded
by a single gene and uses a tightly bound FAD cofactor
in the NAD(P)H dependent conversion of phenol and O2 to
catechol and H2O. This group is related to the NAD
binding ferredoxin reductases.
Length = 238
Score = 32.7 bits (75), Expect = 0.21
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 257 DQSKVDLIFTSGGTGMSPRDVTPEAM-NHLIDKKVP 291
D + +IF +GG+G+S P +M L+++
Sbjct: 106 DSDQRPIIFIAGGSGLSS----PRSMILDLLERGDT 137
>gnl|CDD|224024 COG1099, COG1099, Predicted metal-dependent hydrolases with the
TIM-barrel fold [General function prediction only].
Length = 254
Score = 32.4 bits (74), Expect = 0.26
Identities = 16/77 (20%), Positives = 29/77 (37%), Gaps = 12/77 (15%)
Query: 240 CVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEAMNHLI-------DKKVPC 292
+P E+EE+ ++L+ + V I G G+ + T E + VP
Sbjct: 76 AIPPELEEVLEELEELLSNEDVVAI---GEIGLE--EATDEEKEVFREQLELARELDVPV 130
Query: 293 IEHIIQTEGLKVTPLAM 309
I H + + T +
Sbjct: 131 IVHTPRRNKKEATSKIL 147
>gnl|CDD|167581 PRK03670, PRK03670, competence damage-inducible protein A;
Provisional.
Length = 252
Score = 32.5 bits (74), Expect = 0.27
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 238 KTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEAMNHLIDKKV----PCI 293
T V D++EEIK + + + K +++ SGG G + DVT A+ + +++ C+
Sbjct: 39 ITTVGDDVEEIKSVVLEILSR-KPEVLVISGGLGPTHDDVTMLAVAEALGRELVLCEDCL 97
Query: 294 EHI 296
E I
Sbjct: 98 ERI 100
>gnl|CDD|237789 PRK14690, PRK14690, molybdopterin biosynthesis protein MoeA;
Provisional.
Length = 419
Score = 30.3 bits (68), Expect = 1.5
Identities = 17/62 (27%), Positives = 29/62 (46%), Gaps = 7/62 (11%)
Query: 217 DKSGPLLAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQ--SKVDLIFTSGGTGMSP 274
D + P+L L + + HA + V D+ + +L D+ ++ D+I TSGG
Sbjct: 219 DANRPMLLALARR-WGHAPVDLGRVGDDRAALAARL----DRAAAEADVILTSGGASAGD 273
Query: 275 RD 276
D
Sbjct: 274 ED 275
>gnl|CDD|161761 TIGR00200, cinA_nterm, competence/damage-inducible protein CinA
N-terminal domain. cinA is a DNA damage- or
competence-inducible protein that is polycistronic with
recA in a number of species [DNA metabolism, DNA
replication, recombination, and repair].
Length = 413
Score = 30.3 bits (68), Expect = 1.7
Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 224 AQLLQEDFQH---AHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPE 280
AQ L + H +T V D E +K ++ + + D++ +GG G + D+T E
Sbjct: 22 AQWLADFLAHQGLPLSRRTTVGDNPERLKTIIR--IASERADVLIFNGGLGPTSDDLTAE 79
Query: 281 AMNHLIDKKVPCIEHI 296
+ K P + +
Sbjct: 80 TIATA--KGEPLVLNE 93
>gnl|CDD|239100 cd02419, Peptidase_C39C, A sub-family of peptidase family C39.
Peptidase family C39 mostly contains
bacteriocin-processing endopeptidases from bacteria. The
cysteine peptidases in family C39 cleave the
"double-glycine" leader peptides from the precursors of
various bacteriocins (mostly non-lantibiotic). The
cleavage is mediated by the transporter as part of the
secretion process. Bacteriocins are antibiotic proteins
secreted by some species of bacteria that inhibit the
growth of other bacterial species. The bacteriocin is
synthesized as a precursor with an N-terminal leader
peptide, and processing involves removal of the leader
peptide by cleavage at a Gly-Gly bond, followed by
translocation of the mature bacteriocin across the
cytoplasmic membrane. Most endopeptidases of family C39
are N-terminal domains in larger proteins (ABC
transporters) that serve both functions. The proposed
protease active site is conserved in this sub-family.
Length = 127
Score = 28.8 bits (65), Expect = 1.7
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 262 DLIFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEH 295
DLI + G+S R + + + L K+PCI H
Sbjct: 48 DLIDIAQQLGLSTRALRLD-LEELGQLKLPCILH 80
>gnl|CDD|215829 pfam00266, Aminotran_5, Aminotransferase class-V. This domain is
found in amino transferases, and other enzymes including
cysteine desulphurase EC:4.4.1.-.
Length = 370
Score = 29.5 bits (67), Expect = 2.4
Identities = 10/27 (37%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 245 MEEIKDKLKYWVD-QSKVDLIFTSGGT 270
EE ++K+ +++ S ++IFTSG T
Sbjct: 45 YEEAREKVAEFINAPSDEEIIFTSGTT 71
>gnl|CDD|131461 TIGR02408, ectoine_ThpD, ectoine hydroxylase. Both ectoine and
hydroxyectoine are compatible solvents that serve as
protectants against osmotic and thermal stresses. A
number of genomes synthesize ectoine. This enzyme allows
conversion of ectoine to hydroxyectoine, which may be
more effective for some purposes, and is found in a
subset of ectoine-producing organisms.
Length = 277
Score = 29.5 bits (66), Expect = 2.7
Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 96 GINDHDRHTKSIDFNGINTSLGKSGSSYGSDGCTSAFEVGGE--PWPKKKKFVVKHSV 151
G+ D TK D GI+T GK+GS+ D C + G PWP+ F+V +SV
Sbjct: 194 GVPDPVSLTKLADQGGISTFTGKAGSAVWFD-CNTMHGSGSNITPWPRSNVFMVFNSV 250
>gnl|CDD|211388 cd11302, O-FucT-1, GDP-fucose protein O-fucosyltransferase 1. The
protein O-fucosyltransferase 1 (Ofut1 or O-FucT-1) adds
O-fucose to EGF (epidermal growth factor-like) repeats.
The O-fucsosylation of the Notch receptor signaling
protein is dependent on this enzyme, which requires
GDP-fucose as a substrate. O-fucose residues added to
the target of O-FucT-1 may be further elongated by other
glycosyltransferases. On top of O-fucosylation, O-FucT-1
may have other functions such as the regulation of the
Notch receptor exit from the ER. Six highly conserved
cysteines are present in O-FucT-1, which is a soluble ER
protein, as well as a DXD-like motif (ERD), conserved in
mammals, Drosophila, and C. elegans. Both features are
characteristic of several glycosyltransferase families.
The membrane-bound pre-protein is released by
proteolysis and, as for most glycosyltransferases, is
strongly activated by manganese. O-FucT-1 is similar to
family 1 glycosyltransferases (GT1).
Length = 347
Score = 29.1 bits (66), Expect = 3.2
Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 29/90 (32%)
Query: 240 CVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEAMNHLIDKKVPCIEHIIQT 299
C+P EEI ++K V + K +F + D +H+I++ ++ +++
Sbjct: 250 CLPS-KEEILKQVKRAVKKIKAKSVFIAT-------DN-----DHMIEE----LKKALKS 292
Query: 300 EGLKVT------P---LAMLSR---FKGNC 317
+KV P LA+L + F GNC
Sbjct: 293 LKVKVVHLDPDEPQIDLAILGKADHFIGNC 322
>gnl|CDD|131034 TIGR01979, sufS, cysteine desulfurases, SufSfamily. This model
represents a subfamily of NifS-related cysteine
desulfurases involved in FeS cluster formation needed
for nitrogen fixation among other vital functions. Many
cysteine desulfurases are also active as selenocysteine
lyase and/or cysteine sulfinate desulfinase. This
subfamily is associated with the six-gene SUF system
described in E. coli and Erwinia as an FeS cluster
formation system during oxidative stress. The active
site Cys is this subfamily resembles GHHC with one or
both His conserved [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 403
Score = 29.2 bits (66), Expect = 3.3
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 234 AHILKTCVPDEMEEIKDKLKYWVD-QSKVDLIFTSGGT 270
H L + E +++K+ +++ S +++FT G T
Sbjct: 53 IHTLSVRATEAYEAVREKVAKFINAASDEEIVFTRGTT 90
>gnl|CDD|144934 pfam01524, Gemini_V1, Geminivirus V1 protein. Disruption of the V1
gene in Tomato yellow leaf curl virus (TYLCV) stopped
its ability to systemically infect tomato plants,
suggesting that the V1 gene product is required for
successful infection of the host.
Length = 78
Score = 26.9 bits (60), Expect = 4.0
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 178 PDTNHAQRCSTSMKYWELVRST 199
P+T H RC ++KY +LV T
Sbjct: 10 PETVHGFRCMLAVKYLQLVEKT 31
>gnl|CDD|99959 cd01635, Glycosyltransferase_GTB_type, Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. The structures of the formed
glycoconjugates are extremely diverse, reflecting a wide
range of biological functions. The members of this
family share a common GTB topology, one of the two
protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 229
Score = 28.7 bits (64), Expect = 4.1
Identities = 16/100 (16%), Positives = 32/100 (32%), Gaps = 11/100 (11%)
Query: 223 LAQLLQEDFQHAHILKTCVPDEMEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEAM 282
LA+ L ++ + L + K D++ G +
Sbjct: 22 LAKALARRGHEVEVVA--------LLLLLLLRILRGFKPDVVHAHGYYPAPLALLLAA-- 71
Query: 283 NHLIDKKVPCIEHIIQTEGLKVTPLAMLSRFKGNCPKKWV 322
L+ + H + L+ PL++L+ G K +V
Sbjct: 72 -RLLGIPLVLTVHGVNRSLLEGVPLSLLALSIGLADKVFV 110
>gnl|CDD|224967 COG2056, COG2056, Predicted permease [General function prediction
only].
Length = 444
Score = 28.8 bits (65), Expect = 4.3
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 227 LQEDFQHAHILKTCVP 242
L D QH HI TCVP
Sbjct: 409 LNADGQHDHIWDTCVP 424
>gnl|CDD|239424 cd03308, CmuA_CmuC_like, CmuA_CmuC_like: uncharacterized protein
family similar to uroporphyrinogen decarboxylase (URO-D)
and the methyltransferases CmuA and CmuC.
Length = 378
Score = 28.8 bits (65), Expect = 4.3
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 246 EEIKDKLKYWVDQSKVD--LIFTSGGTGMSPRDVTPEAMNHLID 287
EE D +K +D IF + +S D PE + +I+
Sbjct: 331 EECIDYVKELLDTLAPGGGFIFGTDKPIISADDAKPENLIAVIE 374
>gnl|CDD|188159 TIGR01633, phi3626_gp14_N, putative phage tail component,
N-terminal domain. This model represents the
best-conserved region of about 125 amino acids, toward
the N-terminus, of a family of proteins from temperate
phage of a number of Gram-positive bacteria. These phage
proteins range in length from 230 to 525 amino acids
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 124
Score = 27.7 bits (62), Expect = 4.8
Identities = 8/32 (25%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 236 ILKTCVPDEMEEIKDKLKYWVDQSK-VDLIFT 266
+ P ++ E +L W+++ + V LIF+
Sbjct: 55 KINDIDPRDLRERFRELAGWLNRQEPVPLIFS 86
>gnl|CDD|176917 cd08908, START_STARD12-like, C-terminal lipid-binding START domain
of mammalian STARD12 and related proteins, which also
have an N-terminal Rho GTPase-activating protein
(RhoGAP) domain. This subgroup includes the
steroidogenic acute regulatory protein (StAR)-related
lipid transfer (START) domains of STARD12 (also known as
DLC-1, Arhgap7, and p122-RhoGAP) and related proteins.
It belongs to the START domain family, and in turn to
the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC)
domain superfamily of proteins that bind hydrophobic
ligands. SRPBCC domains have a deep hydrophobic
ligand-binding pocket. Proteins belonging to this
subgroup also have an N-terminal SAM (sterile alpha
motif) domain and a RhoGAP domain, and have a
SAM-RhoGAP-START domain organization. The precise
function of the START domain in this subgroup is
unclear.
Length = 204
Score = 27.7 bits (61), Expect = 6.9
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 230 DFQHAHILKTCVPDEMEEIKDKLKYWVDQS 259
D+ H L+ CV +E+K+K K WV S
Sbjct: 6 DYHH--FLQDCVDGLFKEVKEKFKGWVSYS 33
>gnl|CDD|234022 TIGR02813, omega_3_PfaA, polyketide-type polyunsaturated fatty acid
synthase PfaA. Members of the seed for this alignment
are involved in omega-3 polyunsaturated fatty acid
biosynthesis, such as the protein PfaA from the
eicosapentaenoic acid biosynthesis operon in
Photobacterium profundum strain SS9. PfaA is encoded
together with PfaB, PfaC, and PfaD, and the functions of
the individual polypeptides have not yet been described.
More distant homologs of PfaA, also included with the
reach of this model, appear to be involved in
polyketide-like biosynthetic mechanisms of
polyunsaturated fatty acid biosynthesis, an alternative
to the more familiar iterated mechanism of chain
extension and desaturation, and in most cases are
encoded near genes for homologs of PfaB, PfaC, and/or
PfaD.
Length = 2582
Score = 28.4 bits (63), Expect = 7.5
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 20/93 (21%)
Query: 89 LNEKLNEGINDHDRHTKSIDFNGINTSLGKSGSSYGSDGCTSAFEVGGEPWPKKKKFVVK 148
L ++ ND +H I + + +G + S+ G+ G K +
Sbjct: 356 LVSVFSQD-NDQKQH---IALGSVKSQIGHTKSTAGTAGMI------------KAVLALH 399
Query: 149 HSVLPPHINLAKPEWT---EKSQQYSTTQVIRP 178
H VLPP IN+ +P E S Y T+ RP
Sbjct: 400 HKVLPPTINVDQPNPKLDIENSPFYLNTET-RP 431
>gnl|CDD|150556 pfam09897, DUF2124, Uncharacterized protein conserved in archaea
(DUF2124). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 147
Score = 26.9 bits (60), Expect = 9.5
Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 14/79 (17%)
Query: 230 DFQHAHILKTCVPDE-MEEIKDKLKYWVDQSKVDLIFTSGGTGMSPRDVTPEAMNHLIDK 288
D + A ++ V D M+ + + D++ GG M VTPE + LI+K
Sbjct: 56 DEEKARKIE--VTDVGMQVLGENTDL-----NPDVLVLLGGLAMPKSGVTPEDVKELIEK 108
Query: 289 KVP------CIEHIIQTEG 301
P C + + G
Sbjct: 109 LNPKKVIGVCFMSMFEKAG 127
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
0.316 0.131 0.402
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,370,269
Number of extensions: 1487273
Number of successful extensions: 1441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1420
Number of HSP's successfully gapped: 42
Length of query: 338
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 240
Effective length of database: 6,590,910
Effective search space: 1581818400
Effective search space used: 1581818400
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 (26.4 bits)