RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5298
(109 letters)
>gnl|CDD|238430 cd00834, KAS_I_II, Beta-ketoacyl-acyl carrier protein (ACP)
synthase (KAS), type I and II. KASs are responsible for
the elongation steps in fatty acid biosynthesis. KASIII
catalyses the initial condensation and KAS I and II
catalyze further elongation steps by Claisen
condensation of malonyl-acyl carrier protein (ACP) with
acyl-ACP.
Length = 406
Score = 115 bits (291), Expect = 3e-32
Identities = 39/107 (36%), Positives = 61/107 (57%), Gaps = 1/107 (0%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQF 61
+RVV+TGLG V+P+G + W A+ G++ + P++ + S P +IA + D
Sbjct: 1 RRVVITGLGAVTPLGNGVEEFWEALLAGRSGIRPITRFDASGFPSRIAGEVPDFDPEDYL 60
Query: 62 TQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
+ +LR M R F+L A EALADA +P+ ER GV +G+G+
Sbjct: 61 DRKELRRMDRFAQFALAAAEEALADAGLDPEEL-DPERIGVVIGSGI 106
>gnl|CDD|235987 PRK07314, PRK07314, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 411
Score = 108 bits (273), Expect = 2e-29
Identities = 35/107 (32%), Positives = 59/107 (55%), Gaps = 1/107 (0%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQ 60
+RVVVTGLG VSP+G +S W + GK+ + P++ + S L KIA ++ +
Sbjct: 1 KRRVVVTGLGAVSPLGNDVESTWKNLLAGKSGIGPITHFDTSDLAVKIAGEVKDFNPDDY 60
Query: 61 FTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTG 107
++ + R M R + + A ++A+ DA E+ +R GV +G+G
Sbjct: 61 MSRKEARRMDRFIQYGIAAAKQAVEDAGLEI-TEENADRIGVIIGSG 106
>gnl|CDD|200247 TIGR03150, fabF, beta-ketoacyl-acyl-carrier-protein synthase II.
3-oxoacyl-[acyl-carrier-protein] synthase 2 (KAS-II,
FabF) is involved in the condensation step of fatty acid
biosynthesis in which the malonyl donor group is
decarboxylated and the resulting carbanion used to
attack and extend the acyl group attached to the acyl
carrier protein. Most genomes encoding fatty acid
biosynthesis contain a number of condensing enzymes,
often of all three types: 1, 2 and 3. Synthase 2 is
mechanistically related to synthase 1 (KAS-I, FabB)
containing a number of absolutely conserved catalytic
residues in common. This model is based primarily on
genes which are found in apparent operons with other
essential genes of fatty acid biosynthesis
(GenProp0681). The large gap between the trusted cutoff
and the noise cutoff contains many genes which are not
found adjacent to genes of the fatty acid pathway in
genomes that often also contain a better hit to this
model. These genes may be involved in other processes
such as polyketide biosyntheses. Some genomes contain
more than one above-trusted hit to this model which may
result from recent paralogous expansions. Second hits to
this model which are not next to other fatty acid
biosynthesis genes may be involved in other processes.
FabB sequences should fall well below the noise cutoff
of this model [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 407
Score = 106 bits (267), Expect = 1e-28
Identities = 38/108 (35%), Positives = 61/108 (56%), Gaps = 3/108 (2%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQF 61
+RVVVTGLG V+P+G + W + GK+ + P++ + S LP KIA ++ D +
Sbjct: 1 RRVVVTGLGAVTPLGNGVEEFWENLLAGKSGIGPITRFDASDLPVKIAGEVKDFDPE-DY 59
Query: 62 TQSK-LRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
K R M R ++L A +EA+ D+ + E+ ER GV +G+G+
Sbjct: 60 IDKKEARRMDRFIQYALAAAKEAVEDSGLDI-EEEDAERVGVIIGSGI 106
>gnl|CDD|235781 PRK06333, PRK06333, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 424
Score = 92.0 bits (229), Expect = 2e-23
Identities = 38/116 (32%), Positives = 61/116 (52%), Gaps = 8/116 (6%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGL--DLT 58
KR+VVTG+G VSP+G ++ W + G++ + L++ L KI ++ L D
Sbjct: 3 KKRIVVTGMGAVSPLGCGVETFWQRLLAGQSGIRTLTDFPVGDLATKIGGQVPDLAEDAE 62
Query: 59 AQFTQSKL------RTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
A F + R M R F++ A +EALA A W+P + +ERT +G+G+
Sbjct: 63 AGFDPDRYLDPKDQRKMDRFILFAMAAAKEALAQAGWDPDTLEDRERTATIIGSGV 118
>gnl|CDD|223381 COG0304, FabB, 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid
metabolism / Secondary metabolites biosynthesis,
transport, and catabolism].
Length = 412
Score = 91.9 bits (229), Expect = 3e-23
Identities = 41/108 (37%), Positives = 62/108 (57%), Gaps = 3/108 (2%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQ 60
M+RVV+TGLGIVS +G + W A+ GK+ + P++ + S L KIA I+ DL Q
Sbjct: 2 MRRVVITGLGIVSSLGNGVEEVWAALLAGKSGIRPITRFDASGLGVKIAGEIK--DLDDQ 59
Query: 61 FTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
+ + R M R + +++A EAL DA + R GVA+G+G+
Sbjct: 60 IAKKERRFMDRFSQLAVVAAVEALEDAGLDN-ELNVDMRVGVAIGSGI 106
>gnl|CDD|215449 PLN02836, PLN02836, 3-oxoacyl-[acyl-carrier-protein] synthase.
Length = 437
Score = 88.7 bits (220), Expect = 4e-22
Identities = 40/124 (32%), Positives = 65/124 (52%), Gaps = 17/124 (13%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSE--------------PEYSKLPCK 47
+RVVVTGLG+V+P+G ++ W + G+ V L++ +LP +
Sbjct: 6 RRVVVTGLGLVTPLGCGVETTWRRLIAGECGVRALTQDDLKMKSEDEETQLYTLDQLPSR 65
Query: 48 IAARIEGLDLTAQFTQSKL---RTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAV 104
+AA + F + R+ SR ++L A EAL+DA+W P ++ KERTGV++
Sbjct: 66 VAALVPRGTGPGDFDEELWLNSRSSSRFIGYALCAADEALSDARWLPSEDEAKERTGVSI 125
Query: 105 GTGM 108
G G+
Sbjct: 126 GGGI 129
>gnl|CDD|215723 pfam00109, ketoacyl-synt, Beta-ketoacyl synthase, N-terminal
domain. The structure of beta-ketoacyl synthase is
similar to that of the thiolase family (pfam00108) and
also chalcone synthase. The active site of beta-ketoacyl
synthase is located between the N and C-terminal
domains. The N-terminal domain contains most of the
structures involved in dimer formation and also the
active site cysteine.
Length = 243
Score = 80.0 bits (198), Expect = 1e-19
Identities = 32/112 (28%), Positives = 49/112 (43%), Gaps = 4/112 (3%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPL-SEPEYSKLPCKIAARIEGLDLTA 59
+ V +TG+G P G + W + G+ + ++ P ++A I G D A
Sbjct: 1 AEPVAITGMGCRFPGGVGPEEFWELLLAGRDAIREFPADLSGLYPPSRVAGEIYGFDFDA 60
Query: 60 QFTQSKLR---TMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
F R M +L A EAL DA +P + + +RTGV VG+G
Sbjct: 61 AFFGISPREAEAMDPQQRLALEAAWEALEDAGLDPASLRGSDRTGVFVGSGS 112
>gnl|CDD|240245 PTZ00050, PTZ00050, 3-oxoacyl-acyl carrier protein synthase;
Provisional.
Length = 421
Score = 74.7 bits (184), Expect = 4e-17
Identities = 38/114 (33%), Positives = 60/114 (52%), Gaps = 17/114 (14%)
Query: 11 IVSPVGTTRQSAWNAIKEGKACVSPLSEPEY----------------SKLPCKIAARIEG 54
+V+P+G +S W A+ GK+ + L+E + +PC+IAA ++
Sbjct: 1 VVTPLGVGAESTWEALIAGKSGIRKLTEFPKFLPDCIPEQKALENLVAAMPCQIAAEVDQ 60
Query: 55 LDLTAQFTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
+ R SRAT F++ A REALADAK + +EK +ER GV +G+G+
Sbjct: 61 SEFDPSDFAPTKRE-SRATHFAMAAAREALADAKLDILSEKDQERIGVNIGSGI 113
>gnl|CDD|236265 PRK08439, PRK08439, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 406
Score = 68.6 bits (168), Expect = 6e-15
Identities = 36/108 (33%), Positives = 60/108 (55%), Gaps = 1/108 (0%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQ 60
MKRVVVTG+G+++ +G ++S++ AI G+ + ++ + S P +IA I D T
Sbjct: 1 MKRVVVTGIGMINSLGLNKESSFKAICNGECGIKKITLFDASDFPVQIAGEITDFDPTEV 60
Query: 61 FTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
+++ R L A REA+ DA + P+ E ER GV+ +G+
Sbjct: 61 MDPKEVKKADRFIQLGLKAAREAMKDAGFLPE-ELDAERFGVSSASGI 107
>gnl|CDD|181184 PRK07967, PRK07967, 3-oxoacyl-(acyl carrier protein) synthase I;
Reviewed.
Length = 406
Score = 65.1 bits (159), Expect = 8e-14
Identities = 34/109 (31%), Positives = 66/109 (60%), Gaps = 6/109 (5%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSK--LPCKIAARIEGLDLT 58
M+RVV+TGLGIVS +G +Q +++EG++ ++ PE+++ + ++ ++ LD T
Sbjct: 1 MRRVVITGLGIVSSIGNNQQEVLASLREGRSGIT--FSPEFAEMGMRSQVWGNVK-LDPT 57
Query: 59 AQFTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTG 107
+ +R M A+A++ +A +A+ADA + + + RTG+ G+G
Sbjct: 58 GLIDRKVMRFMGDASAYAYLAMEQAIADAGLSEE-QVSNPRTGLIAGSG 105
>gnl|CDD|238424 cd00828, elong_cond_enzymes, "elongating" condensing enzymes are a
subclass of decarboxylating condensing enzymes,
including beta-ketoacyl [ACP] synthase, type I and II
and polyketide synthases.They are characterized by the
utlization of acyl carrier protein (ACP) thioesters as
primer substrates, as well as the nature of their active
site residues.
Length = 407
Score = 64.0 bits (156), Expect = 2e-13
Identities = 36/109 (33%), Positives = 59/109 (54%), Gaps = 5/109 (4%)
Query: 3 RVVVTGLGIVSPVGT---TRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTA 59
RVV+TG+G+VSP G + W A++EG++ ++P++ + + +A +I D+
Sbjct: 2 RVVITGIGVVSPHGEGCDEVEEFWEALREGRSGIAPVARLKS-RFDRGVAGQIPTGDIPG 60
Query: 60 QFTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
+ + + R T +L+AT EALADA E GV VG+GM
Sbjct: 61 WDAK-RTGIVDRTTLLALVATEEALADAGITDPYEVHPSEVGVVVGSGM 108
>gnl|CDD|181657 PRK09116, PRK09116, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 405
Score = 63.5 bits (155), Expect = 3e-13
Identities = 36/107 (33%), Positives = 58/107 (54%), Gaps = 1/107 (0%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPE-YSKLPCKIAARIEGLDLTA 59
M+RVVVTG+G V+ +G Q+ +K G+ V + E + Y L ++AA I+ +L A
Sbjct: 1 MRRVVVTGMGGVTALGEDWQTIAARLKAGRNAVRRMPEWDRYDGLNTRLAAPIDDFELPA 60
Query: 60 QFTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGT 106
+T+ K+R+M R + + A+ AL DA R G+A G+
Sbjct: 61 HYTRKKIRSMGRVSLMATRASELALEDAGLLGDPILTDGRMGIAYGS 107
>gnl|CDD|238428 cd00832, CLF, Chain-length factor (CLF) is a factor required for
polyketide chain initiation of aromatic
antibiotic-producing polyketide synthases (PKSs) of
filamentous bacteria. CLFs have been shown to have
decarboxylase activity towards malonyl-acyl carrier
protein (ACP). CLFs are similar to other elongation
ketosynthase domains, but their active site cysteine is
replaced by a conserved glutamine.
Length = 399
Score = 61.6 bits (150), Expect = 1e-12
Identities = 28/91 (30%), Positives = 46/91 (50%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQF 61
+R VVTG+G+V+P G + W A+ +G++ + P++ + S P ++A + D
Sbjct: 1 RRAVVTGIGVVAPNGLGVEEYWKAVLDGRSGLGPITRFDPSGYPARLAGEVPDFDAAEHL 60
Query: 62 TQSKLRTMSRATAFSLIATREALADAKWNPQ 92
L R T +L A ALADA +P
Sbjct: 61 PGRLLPQTDRMTRLALAAADWALADAGVDPA 91
>gnl|CDD|181539 PRK08722, PRK08722, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 414
Score = 61.6 bits (149), Expect = 2e-12
Identities = 30/107 (28%), Positives = 57/107 (53%), Gaps = 1/107 (0%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQF 61
+RVVVTG+G++SPVG T +S+W A+ G++ + + + + + A ++ +
Sbjct: 4 RRVVVTGMGMLSPVGNTVESSWKALLAGQSGIVNIEHFDTTNFSTRFAGLVKDFNCEEYM 63
Query: 62 TQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
++ R M + + A +AL D+ E+ R GVA+G+G+
Sbjct: 64 SKKDARKMDLFIQYGIAAGIQALDDSGLE-VTEENAHRIGVAIGSGI 109
>gnl|CDD|215421 PLN02787, PLN02787, 3-oxoacyl-[acyl-carrier-protein] synthase II.
Length = 540
Score = 57.7 bits (139), Expect = 4e-11
Identities = 33/109 (30%), Positives = 54/109 (49%), Gaps = 2/109 (1%)
Query: 2 KRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQF 61
+RVVVTG+G+VSP+G +N + EG + +S + + S+ P +IA I+
Sbjct: 129 RRVVVTGMGVVSPLGHDPDVFYNNLLEGVSGISEIERFDCSQFPTRIAGEIKSFSTDGWV 188
Query: 62 TQSKLRTMSRATAFSLIATREALADAKWNPQ--NEKQKERTGVAVGTGM 108
+ M + + L A ++ALAD E K + GV +G+ M
Sbjct: 189 APKLSKRMDKFMLYLLTAGKKALADGGITEDVMKELDKTKCGVLIGSAM 237
>gnl|CDD|180839 PRK07103, PRK07103, polyketide beta-ketoacyl:acyl carrier protein
synthase; Validated.
Length = 410
Score = 47.3 bits (113), Expect = 2e-07
Identities = 34/113 (30%), Positives = 47/113 (41%), Gaps = 11/113 (9%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCK--------IAARI 52
M VVVTG+G+VS +G R S A+ G+ + P I A +
Sbjct: 1 MDEVVVTGVGVVSAIGQGRPSFAAALLAGRHAFGVMRRPGRQVPDDAGAGLASAFIGAEL 60
Query: 53 EGLDLTAQFTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVG 105
+ L L + LR S + +L A REA DA P +R G+ VG
Sbjct: 61 DSLALPERLDAKLLRRASLSAQAALAAAREAWRDAALGPV---DPDRIGLVVG 110
>gnl|CDD|236129 PRK07910, PRK07910, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 418
Score = 43.6 bits (103), Expect = 4e-06
Identities = 32/108 (29%), Positives = 54/108 (50%), Gaps = 8/108 (7%)
Query: 4 VVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEP--EYSKLPCKIAARI-EGLDLTAQ 60
VVVTG+ + + + T ++ W + +G++ + L +P E LP +I + E D Q
Sbjct: 14 VVVTGIAMTTALATDAETTWKLLLDGQSGIRTLDDPFVEEFDLPVRIGGHLLEEFD--HQ 71
Query: 61 FTQSKLRTMSRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
T+ +LR MS S + R +A +P E R V++GTG+
Sbjct: 72 LTRVELRRMSYLQRMSTVLGRRVWENAG-SP--EVDTNRLMVSIGTGL 116
>gnl|CDD|235817 PRK06501, PRK06501, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 425
Score = 35.0 bits (81), Expect = 0.003
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 6/84 (7%)
Query: 4 VVVTGLGIVSPVGTTRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTAQFTQ 63
V VTG+G+V+ +G + W A+ G++ + ++ L +IA ++ L
Sbjct: 13 VAVTGMGVVTSLGQGKADNWAALTAGESGIHTITRFPTEGLRTRIAGTVDFLPE------ 66
Query: 64 SKLRTMSRATAFSLIATREALADA 87
S + + A + +A EALA A
Sbjct: 67 SPFGASALSEALARLAAEEALAQA 90
>gnl|CDD|235653 PRK05952, PRK05952, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 381
Score = 31.9 bits (73), Expect = 0.042
Identities = 15/30 (50%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 1 MKRVVVTGLGIVSPVGTTRQSAWNAIKEGK 30
M +VVVTG+G+VS +G QS W + +GK
Sbjct: 1 MMKVVVTGIGLVSALGDLEQS-WQRLLQGK 29
>gnl|CDD|238429 cd00833, PKS, polyketide synthases (PKSs) polymerize simple fatty
acids into a large variety of different products, called
polyketides, by successive decarboxylating Claisen
condensations. PKSs can be divided into 2 groups,
modular type I PKSs consisting of one or more large
multifunctional proteins and iterative type II PKSs,
complexes of several monofunctional subunits.
Length = 421
Score = 28.7 bits (65), Expect = 0.59
Identities = 28/102 (27%), Positives = 38/102 (37%), Gaps = 17/102 (16%)
Query: 23 WNAIKEGKACVSPLSEPEY--------SKLPCKIAARIEG-LDLTAQFTQSKLRTMSR-A 72
W + EG+ +S + E + P K R G LD F + R A
Sbjct: 22 WENLLEGRDAISEIPEDRWDADGYYPDPGKPGKTYTRRGGFLDDVDAFDAAFFGISPREA 81
Query: 73 TAF------SLIATREALADAKWNPQNEKQKERTGVAVGTGM 108
A L EAL DA ++P++ RTGV VG
Sbjct: 82 EAMDPQQRLLLEVAWEALEDAGYSPESLAGS-RTGVFVGASS 122
>gnl|CDD|238421 cd00825, decarbox_cond_enzymes, decarboxylating condensing enzymes;
Family of enzymes that catalyze the formation of a new
carbon-carbon bond by a decarboxylating Claisen-like
condensation reaction. Members are involved in the
synthesis of fatty acids and polyketides, a diverse
group of natural products. Both pathways are an
iterative series of additions of small carbon units,
usually acetate, to a nascent acyl group. There are 2
classes of decarboxylating condensing enzymes, which can
be distinguished by sequence similarity, type of active
site residues and type of primer units (acetyl CoA or
acyl carrier protein (ACP) linked units).
Length = 332
Score = 27.6 bits (61), Expect = 1.1
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 70 SRATAFSLIATREALADAKWNPQNEKQKERTGVAVGTG 107
S + A A+ADA + + +K GV VGTG
Sbjct: 9 SYVSILGFEAAERAIADAGLSREYQKNP-IVGVVVGTG 45
>gnl|CDD|235819 PRK06519, PRK06519, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 398
Score = 26.8 bits (60), Expect = 2.6
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 12/52 (23%)
Query: 4 VVVTGLGIVSPVGTTRQSAWNAIKEGKAC------------VSPLSEPEYSK 43
VV+TG+G+VS +G + WNA+ G+ V PL E ++S+
Sbjct: 8 VVITGIGLVSSLGEGLDAHWNALSAGRPQPNVDTETFAPYPVHPLPEIDWSQ 59
>gnl|CDD|220525 pfam10022, DUF2264, Uncharacterized protein conserved in bacteria
(DUF2264). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 361
Score = 26.4 bits (59), Expect = 3.6
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 74 AFSLIATREALADAKWNPQNEKQKER 99
A +L+ E L W+P +E +KE
Sbjct: 115 ALALLRAPEQL----WDPLDEAEKEN 136
>gnl|CDD|235394 PRK05297, PRK05297, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1290
Score = 25.9 bits (58), Expect = 5.6
Identities = 14/35 (40%), Positives = 15/35 (42%), Gaps = 9/35 (25%)
Query: 9 LGIVSPVG------TTRQSAWNAIKEGKACVSPLS 37
LGI PVG T+ W E K SPLS
Sbjct: 763 LGITIPVGKDSLSMKTK---WQEGGEDKEVTSPLS 794
>gnl|CDD|147282 pfam05020, zf-NPL4, NPL4 family, putative zinc binding region.
The HRD4 gene was identical to NPL4, a gene previously
implicated in nuclear transport. Using a diverse set of
substrates and direct ubiquitination assays, analysis
revealed that HRD4/NPL4 is required for a poorly
characterized step in ER-associated degradation after
ubiquitination of target proteins but before their
recognition by the 26S proteasome. This region of the
protein contains possibly two zinc binding motifs
(Bateman A pers. obs.). Npl4p physically associates
with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p
complex. The Cdc48-Ufd1-Npl4 complex functions in the
recognition of several polyubiquitin-tagged proteins
and facilitates their presentation to the 26S
proteasome for processive degradation or even more
specific processing.
Length = 147
Score = 25.4 bits (56), Expect = 6.5
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 21 SAWNAIKEGKACVSPLSEPEYS-KLPC 46
SA N + G + + PL EP+Y K C
Sbjct: 68 SATNKKESGSSYIPPLEEPDYRIKKNC 94
>gnl|CDD|235511 PRK05574, holA, DNA polymerase III subunit delta; Reviewed.
Length = 340
Score = 25.2 bits (56), Expect = 8.0
Identities = 12/42 (28%), Positives = 20/42 (47%)
Query: 18 TRQSAWNAIKEGKACVSPLSEPEYSKLPCKIAARIEGLDLTA 59
++SAW + KA V P+ ++LP I R++ L
Sbjct: 125 KKKSAWFKALKKKAVVVEAQPPKEAELPQWIQQRLKQQGLQI 166
>gnl|CDD|188163 TIGR01735, FGAM_synt, phosphoribosylformylglycinamidine synthase,
single chain form. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This form is found mostly in eukaryotes and
Proteobacteria. In Bacillus subtilis PurL (FGAM synthase
II) and PurQ (FGAM synthase I), homologous to different
parts of this model, perform the equivalent function;
the unrelated small protein PurS is also required and
may be a third subunit [Purines, pyrimidines,
nucleosides, and nucleotides, Purine ribonucleotide
biosynthesis].
Length = 1310
Score = 25.5 bits (56), Expect = 8.1
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 9 LGIVSPVGT---TRQSAWNAIKEGKACVSPLS 37
LGI PVG + ++ W E K+ +P S
Sbjct: 782 LGIAIPVGKDSLSMKTRWQDNGETKSVTAPGS 813
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
0.314 0.127 0.362
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,345,082
Number of extensions: 428856
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 372
Number of HSP's successfully gapped: 37
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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: 53 (24.1 bits)