RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15189
(150 letters)
>gnl|CDD|216681 pfam01755, Glyco_transf_25, Glycosyltransferase family 25 (LPS
biosynthesis protein). Members of this family belong to
Glycosyltransferase family 25 This is a family of
glycosyltransferases involved in lipopolysaccharide
(LPS) biosynthesis. These enzymes catalyze the transfer
of various sugars onto the growing LPS chain during its
biosynthesis.
Length = 200
Score = 91.0 bits (226), Expect = 1e-23
Identities = 42/157 (26%), Positives = 66/157 (42%), Gaps = 29/157 (18%)
Query: 1 MLPGYADPYHKRPMKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFRQKLATI 60
Y RP+ GEIGCFLSHY++W + V+ N + +++LEDDV F+ L +
Sbjct: 50 YNFLLRSKYAGRPLTLGEIGCFLSHYSLWQKCVELNLEYIIILEDDVILSENFKAILQFL 109
Query: 61 LKELKTKTLPAWDLIYLGRKKLS-EKPDTWVSGSRYLVEASYSY---------------- 103
LKE+ L K + D ++ + S +
Sbjct: 110 LKEIN----ELEFLRLGEWLKTRFDPNDKFIVRLETFLMDSKKFKRTPIADYGNRAFYLL 165
Query: 104 -----WTLGYLLSRQGARKLTQARPLSNL-LPVDEFL 134
T GYL++ + A+KL + N LPVD+ +
Sbjct: 166 KSGHAGTAGYLITPKAAKKLLKY--SKNWPLPVDDLM 200
>gnl|CDD|133474 cd06532, Glyco_transf_25, Glycosyltransferase family 25
[lipooligosaccharide (LOS) biosynthesis protein] is a
family of glycosyltransferases involved in LOS
biosynthesis. The members include the beta(1,4)
galactosyltransferases: Lgt2 of Moraxella catarrhalis,
LgtB and LgtE of Neisseria gonorrhoeae and Lic2A of
Haemophilus influenzae. M. catarrhalis Lgt2 catalyzes
the addition of galactose (Gal) to the growing chain of
LOS on the cell surface. N. gonorrhoeae LgtB and LgtE
link Gal-beta(1,4) to GlcNAc (N-acetylglucosamine) and
Glc (glucose), respectively. The genes encoding LgtB and
LgtE are two genes of a five gene locus involved in the
synthesis of gonococcal LOS. LgtE is believed to perform
the first step in LOS biosynthesis.
Length = 128
Score = 86.5 bits (215), Expect = 1e-22
Identities = 37/134 (27%), Positives = 52/134 (38%), Gaps = 52/134 (38%)
Query: 1 MLPGYADPYHKRPMKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFRQKLATI 60
+ P + RP+ GEIGCFLSHY +W ++V++N + ++LEDD +
Sbjct: 47 LYDALFLPRYGRPLTPGEIGCFLSHYKLWQKIVESNLEYALILEDDAILD---------- 96
Query: 61 LKELKTKTLPAWDLIYLGRKKLSEKPDTWVSGSRYLVEASYSYWTLGYLLSRQGARKLTQ 120
T GYL+SR+GA+KL
Sbjct: 97 -----------------------------------------PDGTAGYLVSRKGAKKLLA 115
Query: 121 ARPLSNLLPVDEFL 134
A LPVD FL
Sbjct: 116 ALEPI-DLPVDVFL 128
>gnl|CDD|225843 COG3306, COG3306, Glycosyltransferase involved in LPS biosynthesis
[Cell envelope biogenesis, outer membrane].
Length = 255
Score = 87.4 bits (217), Expect = 9e-22
Identities = 40/144 (27%), Positives = 58/144 (40%), Gaps = 11/144 (7%)
Query: 6 ADPYHKRPMKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFRQKLATILKELK 65
Y R + GEIGC+LSH +W + ++ N +++LEDDV F + L LK
Sbjct: 56 HLLYEGRRLSPGEIGCYLSHLKLWKKALEENLPYILILEDDVVLGEDFEEFLEDDLKLPV 115
Query: 66 TKTLPAWDLIYLG----RKKLSEKPDTWVSGSRYLVEASYSYW--TLGYLLSRQGARK-L 118
D+ L L+ SY T GY++SR+ A+K L
Sbjct: 116 RFLGDDIDIHRLETFLSPNPLAFNAV----FIGRNFPLLNSYHLGTAGYIISRKAAKKFL 171
Query: 119 TQARPLSNLLPVDEFLPLLSGKHP 142
+LPVD F+ L
Sbjct: 172 ELTESFKVVLPVDWFMFLEFLHGV 195
>gnl|CDD|233440 TIGR01499, folC, folylpolyglutamate synthase/dihydrofolate
synthase. This model represents the FolC family of
folate pathway proteins. Most examples are bifunctional,
active as both folylpolyglutamate synthetase (EC
6.3.2.17) and dihydrofolate synthetase (EC 6.3.2.12).
The two activities are similar - ATP + glutamate +
dihydropteroate or tetrahydrofolyl-[Glu](n) = ADP +
orthophosphate + dihydrofolate or
tetrahydrofolyl-[Glu](n+1). A mutation study of the FolC
gene of E. coli suggests that both activities belong to
the same active site. Because some examples are
monofunctional (and these cannot be separated
phylogenetically), the model is treated as subfamily,
not equivalog [Biosynthesis of cofactors, prosthetic
groups, and carriers, Folic acid].
Length = 398
Score = 31.5 bits (72), Expect = 0.15
Identities = 14/58 (24%), Positives = 19/58 (32%), Gaps = 4/58 (6%)
Query: 51 SFFRQKLATILKELKTK----TLPAWDLIYLGRKKLSEKPDTWVSGSRYLVEASYSYW 104
+ R A L T+ W K+ S + D V+GS YLV
Sbjct: 341 DYPRADDAADLAAFAETFGGETVEDWREALALAKEASAEDDILVTGSLYLVGEVRKLL 398
>gnl|CDD|238362 cd00688, ISOPREN_C2_like, This group contains class II terpene
cyclases, protein prenyltransferases beta subunit, two
broadly specific proteinase inhibitors
alpha2-macroglobulin (alpha (2)-M) and pregnancy zone
protein (PZP) and, the C3 C4 and C5 components of
vertebrate complement. Class II terpene cyclases include
squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase
(OSQCY), these integral membrane proteins catalyze a
cationic cyclization cascade converting linear
triterpenes to fused ring compounds. The protein
prenyltransferases include protein farnesyltransferase
(FTase) and geranylgeranyltransferase types I and II
(GGTase-I and GGTase-II) which catalyze the
carboxyl-terminal lipidation of Ras, Rab, and several
other cellular signal transduction proteins,
facilitating membrane associations and specific
protein-protein interactions. Alpha (2)-M is a major
carrier protein in serum and involved in the
immobilization and entrapment of proteases. PZP is a
pregnancy associated protein. Alpha (2)-M and PZP are
known to bind to and, may modulate, the activity of
placental protein-14 in T-cell growth and cytokine
production thereby protecting the allogeneic fetus from
attack by the maternal immune system.
Length = 300
Score = 29.1 bits (65), Expect = 0.94
Identities = 9/40 (22%), Positives = 14/40 (35%)
Query: 89 WVSGSRYLVEASYSYWTLGYLLSRQGARKLTQARPLSNLL 128
+ L ++ Y+ W LL+ L A L L
Sbjct: 228 GRDRTNKLSDSCYTEWAAYALLALGKLGDLEDAEKLVKWL 267
>gnl|CDD|218210 pfam04679, DNA_ligase_A_C, ATP dependent DNA ligase C terminal
region. This region is found in many but not all
ATP-dependent DNA ligase enzymes (EC:6.5.1.1). It is
thought to constitute part of the catalytic core of ATP
dependent DNA ligase.
Length = 95
Score = 27.9 bits (63), Expect = 1.0
Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 17/76 (22%)
Query: 42 VLEDDVRFESF----------FRQKLATILKELKTKTLPAWDLIYLGRKKLSEKPDTWVS 91
V +DD R +L L+ L+ K P + +E+PD WV
Sbjct: 12 VYDDDGRLVYVGKVGTGFSDADLAELRERLEPLERKKSPFAE------PVPAERPDVWVE 65
Query: 92 GSRYLVEASYSYWTLG 107
+ E ++ WT
Sbjct: 66 -PELVAEVEFAEWTAS 80
>gnl|CDD|218871 pfam06046, Sec6, Exocyst complex component Sec6. Sec6 is a
component of the multiprotein exocyst complex. Sec6
interacts with Sec8, Sec10 and Exo70.These exocyst
proteins localise to regions of active exocytosis-at the
growing ends of interphase cells and in the medial
region of cells undergoing cytokinesis-in an
F-actin-dependent and exocytosis- independent manner.
Length = 557
Score = 28.5 bits (64), Expect = 1.5
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 17/57 (29%)
Query: 21 CFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFRQKLATILKELKTKTLPAWDLIYL 77
F HYNI+ V+ + L L+EL L A D++ +
Sbjct: 128 LFPPHYNIFKTYVN-----------------IYHNALHDFLQELADPELEAEDILAI 167
>gnl|CDD|212510 cd11724, TP_methylase_like, Uncharacterized subfamily of S-AdoMet
dependent tetrapyrrole methylases. TP-methylases use
S-AdoMet (S-adenosyl-L-methionine or SAM) in the
methylation of diverse substrates. Most members catalyze
various methylation steps in cobalamin (vitamin B12)
biosynthesis, other members like Diphthine synthase and
Ribosomal RNA small subunit methyltransferase I (RsmI)
act on other substrates. The function of this subfamily
is not known.
Length = 255
Score = 28.0 bits (63), Expect = 1.9
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 57 LATILKELKTKTLPAWDLIYLGR 79
L TIL++LK + P LIY+G
Sbjct: 230 LDTILEKLKGEKEPFEGLIYVGD 252
>gnl|CDD|233149 TIGR00845, caca, sodium/calcium exchanger 1. The Ca2+:Cation
Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
family are found ubiquitously, having been identified in
animals, plants, yeast, archaea and widely divergent
bacteria.All of the characterized animal proteins
catalyze Ca2+:Na+ exchange although some also transport
K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
antiport but may also catalyze Na+:H+ antiport. All
remaining well-characterized members of the family
catalyze Ca2+:H+ exchange.This model is specific for the
eukaryotic sodium ion/calcium ion exchangers of the Caca
family [Transport and binding proteins, Other].
Length = 928
Score = 28.2 bits (63), Expect = 2.2
Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 30 NEVVDNNHDIVMVLEDDVRFESFFRQKLATILKELKTK 67
N VDN D +VLE E+ R+++ ILKELK K
Sbjct: 294 NSHVDNFLDGALVLEVKEFDEA--RREMIRILKELKQK 329
>gnl|CDD|225752 COG3211, PhoX, Predicted phosphatase [General function prediction
only].
Length = 616
Score = 27.9 bits (62), Expect = 2.6
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 7 DPY--HKRPMKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFR 54
DP + P+K+ +G F H V+ + +V+ L DD R E F++
Sbjct: 293 DPNDPNSTPVKRTALGRF-KHEAA-AVDVNKDGRVVVYLGDDERGEYFYK 340
>gnl|CDD|216563 pfam01547, SBP_bac_1, Bacterial extracellular solute-binding
protein. This family also includes the bacterial
extracellular solute-binding protein family POTD/POTF.
Length = 260
Score = 27.0 bits (59), Expect = 4.4
Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 2/79 (2%)
Query: 38 DIVMVLEDDVRFESFFRQKLATILKELKTKTLPAWDLIYLGRKKLSEKPDTWVSGSRYLV 97
D+ +D + + L L + L WD + KKL EK T + G+
Sbjct: 52 DVFASADDWLAK--LAKAGLLLPLDDYVKNYLVTWDELLEAAKKLKEKGKTPIGGAYGGD 109
Query: 98 EASYSYWTLGYLLSRQGAR 116
+ + LL+ G
Sbjct: 110 ASGTLGYFTLALLASLGGP 128
>gnl|CDD|179002 PRK00396, rnpA, ribonuclease P; Reviewed.
Length = 130
Score = 26.3 bits (58), Expect = 4.6
Identities = 11/34 (32%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 54 RQKLATILKE---LKTKTLPAWDLIYLGRKKLSE 84
R +L +++E L +L WD++ + RK L E
Sbjct: 63 RNRLKRLIRESFRLNQHSLAGWDIVVVARKGLGE 96
>gnl|CDD|218748 pfam05787, DUF839, Bacterial protein of unknown function (DUF839).
This family consists of several bacterial proteins of
unknown function that contain a predicted beta-propeller
repeats.
Length = 515
Score = 27.1 bits (60), Expect = 4.7
Identities = 20/50 (40%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 7 DPYHKR--PMKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFR 54
DPY R P+K+ +G F H V D V+ L DD RFE F+R
Sbjct: 220 DPYDPRSTPVKRTALGRF-KHEAAAVVVNDPGR-GVVYLGDDERFEYFYR 267
>gnl|CDD|224312 COG1394, NtpD, Archaeal/vacuolar-type H+-ATPase subunit D [Energy
production and conversion].
Length = 211
Score = 26.5 bits (59), Expect = 4.9
Identities = 13/31 (41%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 37 HDIVMVLEDDVRFESFFRQKLATILKELKTK 67
I LE+ R E F R K KE KTK
Sbjct: 180 KYIESKLEERER-EDFVRLKKIKKKKEAKTK 209
>gnl|CDD|219020 pfam06422, PDR_CDR, CDR ABC transporter. Corresponds to a region
of the PDR/CDR subgroup of ABC transporters comprising
extracellular loop 3, transmembrane segment 6 and linker
region.
Length = 102
Score = 25.6 bits (57), Expect = 5.4
Identities = 9/16 (56%), Positives = 11/16 (68%), Gaps = 1/16 (6%)
Query: 88 TWVSGSRYLVEASYSY 103
++VSG YL E SY Y
Sbjct: 29 SYVSGDDYL-EESYGY 43
>gnl|CDD|193222 pfam12746, GNAT_acetyltran, GNAT acetyltransferase. Many of the
members are annotated s being Zwittermicin A resistance
proteins, whereas others are listed as being GNAT
acetyltransferases. The family has similarities to the
GNAT acetyltransferase family.
Length = 269
Score = 26.5 bits (58), Expect = 5.7
Identities = 24/78 (30%), Positives = 33/78 (42%), Gaps = 15/78 (19%)
Query: 14 MKKGEIGCFLSHYNIWNEVVDNNHDIVMVLEDDVRFESFFRQKLAT------ILKELKTK 67
+ KGE+ C S Y I+ D +I + ++D R + LA IL L
Sbjct: 175 LHKGEVVCGASSYAIY----DAGIEIEVATDEDYR-----GKGLAKACAAALILACLDKG 225
Query: 68 TLPAWDLIYLGRKKLSEK 85
P WD L KL+EK
Sbjct: 226 IYPNWDAANLTSAKLAEK 243
>gnl|CDD|223751 COG0679, COG0679, Predicted permeases [General function prediction
only].
Length = 311
Score = 26.1 bits (58), Expect = 7.7
Identities = 16/32 (50%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 106 LGYLLSRQGARKLTQARPLSNLLPVDEFLPLL 137
LGYLL R G AR LS L+ V LP L
Sbjct: 18 LGYLLKRFGILDEEAARGLSRLV-VYVALPAL 48
>gnl|CDD|224794 COG1882, PflD, Pyruvate-formate lyase [Energy production and
conversion].
Length = 755
Score = 26.5 bits (59), Expect = 7.8
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 2 LPGYADPYHKRPMKKGEI 19
Y DPY +R ++ G I
Sbjct: 279 TDQYLDPYIERDLEAGRI 296
>gnl|CDD|182280 PRK10167, PRK10167, hypothetical protein; Provisional.
Length = 169
Score = 25.7 bits (56), Expect = 8.5
Identities = 12/44 (27%), Positives = 21/44 (47%)
Query: 54 RQKLATILKELKTKTLPAWDLIYLGRKKLSEKPDTWVSGSRYLV 97
RQ+LA ++ + P + + ++ PD W+SG RY
Sbjct: 112 RQQLAALIDSYRRGEQPLLAPLMRIKHYMALYPDAWLSGQRYFE 155
>gnl|CDD|215059 PLN00111, PLN00111, accumulation of photosystem one; Provisional.
Length = 399
Score = 26.1 bits (58), Expect = 9.1
Identities = 16/55 (29%), Positives = 21/55 (38%)
Query: 38 DIVMVLEDDVRFESFFRQKLATILKELKTKTLPAWDLIYLGRKKLSEKPDTWVSG 92
L ++ LKEL +TL AW+ + G KKL K V G
Sbjct: 240 GPSSPLLTELDDSEIEAPSSEEELKELAEETLEAWEKVRSGVKKLMRKYPVKVCG 294
>gnl|CDD|223867 COG0796, MurI, Glutamate racemase [Cell envelope biogenesis,
outer membrane].
Length = 269
Score = 26.0 bits (58), Expect = 9.2
Identities = 8/20 (40%), Positives = 16/20 (80%), Gaps = 1/20 (5%)
Query: 59 TILKELKTKTLPAWDLIYLG 78
++L+E++ + LP D+IY+G
Sbjct: 19 SVLREIR-RQLPDEDIIYVG 37
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
0.319 0.138 0.429
Gapped
Lambda K H
0.267 0.0545 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,965,442
Number of extensions: 713860
Number of successful extensions: 602
Number of sequences better than 10.0: 1
Number of HSP's gapped: 601
Number of HSP's successfully gapped: 38
Length of query: 150
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 62
Effective length of database: 7,034,450
Effective search space: 436135900
Effective search space used: 436135900
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: 54 (25.0 bits)