RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= 537021.9.peg.788_1
(270 letters)
>gnl|CDD|34229 COG4591, LolE, ABC-type transport system, involved in lipoprotein
release, permease component [Cell envelope biogenesis,
outer membrane].
Length = 408
Score = 195 bits (498), Expect = 7e-51
Identities = 97/267 (36%), Positives = 151/267 (56%), Gaps = 7/267 (2%)
Query: 3 IFSRFEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFREDMIKRVL 62
+F E+ +A RYL + RK FISI S +S IG+ +GV LIVV+SVMNGF++++ R+L
Sbjct: 1 MFMPLELFIALRYLRA-RKRRFISIISALSLIGIALGVAVLIVVLSVMNGFQKELENRIL 59
Query: 63 GINGHVVIQQKYYPLVDYQFIANRLDFIPDVIKVLPFVSGQAFVSGLSSGGSGVLVRGIS 122
G+N HV I + P+ DY+ + + P V P++ GQA + + SGVLVRG+
Sbjct: 60 GVNPHVQITPEDGPIDDYRELIKLILKNPGVKAASPYIEGQALLQS-GNNSSGVLVRGVD 118
Query: 123 NSDFSYLQNSFSRFYGNVSNDFDRGK-GVIIGKDLARNLGISIGDKINILSPYGDVTPMG 181
D S +D G+ G+I+G LA LG+ +GDK+ +++P + P G
Sbjct: 119 PKDE-DKSAISSFLKDGSEDDLKPGEFGIILGSGLAEKLGVRVGDKVTLITPESNT-PFG 176
Query: 182 MGIRSKSYTVLGMFRMRFPDYDNGMVYMSLQEAQLYFNLE-NAVSGIEVFVKDPDAIEKT 240
G R K +TV+G+F + D + Y+ L++AQ FNL V+GI + +KDP E+
Sbjct: 177 RGPRQKRFTVVGIFSTGLSELDESLAYIPLEDAQNLFNLPKGVVTGIRLKLKDPFNAEEL 236
Query: 241 HENI-VRILGNGVVVIDWQQRYQIFFS 266
+ + +L G+ DW+++ FFS
Sbjct: 237 KRKLEIELLPQGLKAKDWREQNGEFFS 263
>gnl|CDD|38054 KOG2843, KOG2843, KOG2843, Fumarylacetoacetase [Carbohydrate
transport and metabolism].
Length = 420
Score = 31.1 bits (70), Expect = 0.32
Identities = 35/112 (31%), Positives = 47/112 (41%), Gaps = 15/112 (13%)
Query: 157 ARNLGISIGDKINILSPYGDVTPMGMGIRSKSYTVLGMFRMR-----FPDYDNGMVYMSL 211
A N+GI K N L P P+G R+ S V G R PD V+ +
Sbjct: 134 ATNVGIMFRGKENALMPNWRHLPVGYHGRASSVVVSGTPIRRPLGQTKPDDAEKPVFGAC 193
Query: 212 QEAQLYFNLENA--VSGIEVFVKDPDAIEKTHENIVRILGNGVVVI-DWQQR 260
+ L F LE A V G + +P I+K +NI G V++ DW R
Sbjct: 194 K--LLDFELEMAFFVGGPGNQLGEPIPIDKAWKNIF-----GFVLMNDWSAR 238
>gnl|CDD|33190 COG3383, COG3383, Uncharacterized anaerobic dehydrogenase [General
function prediction only].
Length = 978
Score = 29.1 bits (65), Expect = 1.1
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 150 VIIGKDLARNLGISIGDKINILSPYGDVT 178
V I +LA GI GD + + S +G++
Sbjct: 857 VEISPELAAERGIEDGDLVRLTSEFGEIK 885
>gnl|CDD|37768 KOG2557, KOG2557, KOG2557, Uncharacterized conserved protein,
contains TLDc domain [Function unknown].
Length = 427
Score = 28.5 bits (63), Expect = 1.9
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 7 FEVIVAWRYLFSNRKNAFISIASFISFIGVMIGVMALIVVMSVMNGFR 54
V W+ L+S+ + SF +F+G G+ ++++ G+
Sbjct: 229 HHERVEWKLLYSSSVHG----QSFSTFLGHTSGMGPSVLIIKDTEGYV 272
>gnl|CDD|145483 pfam02359, CDC48_N, Cell division protein 48 (CDC48), N-terminal
domain. This domain has a double psi-beta barrel fold
and includes VCP-like ATPase and N-ethylmaleimide
sensitive fusion protein N-terminal domains. Both the
VAT and NSF N-terminal functional domains consist of two
structural domains of which this is at the N-terminus.
The VAT-N domain found in AAA ATPases pfam00004 is a
substrate 185-residue recognition domain.
Length = 87
Score = 28.7 bits (65), Expect = 2.0
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 145 DRGKGVI-IGKDLARNLGISIGDKINILSPYGDV 177
D G G+I + +N G+SIGD++ + P DV
Sbjct: 55 DEGPGIIRMDGVQRKNAGVSIGDEVTV-RPAEDV 87
>gnl|CDD|30310 cd02778, MopB_CT_Thiosulfate-R-like, The MopB_CT_Thiosulfate-R-like
CD contains thiosulfate-, sulfur-, and
polysulfide-reductases, and other related proteins.
Thiosulfate reductase catalyzes the cleavage of
sulfur-sulfur bonds in thiosulfate. Polysulfide
reductase is a membrane-bound enzyme that catalyzes the
reduction of polysulfide using either hydrogen or
formate as the electron donor. Also included in this CD
is the phenylacetyl-CoA:acceptor oxidoreductase, large
subunit (PadB2), which has been characterized as a
membrane-bound molybdenum-iron-sulfur enzyme involved in
anaerobic metabolism of phenylalanine in the
denitrifying bacterium Thauera aromatica. The
MopB_CT_Thiosulfate-R-like CD is of the conserved
molybdopterin_binding C-terminal (MopB_CT) region
present in many, but not all, MopB homologs..
Length = 123
Score = 28.3 bits (63), Expect = 2.4
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 149 GVIIGKDLARNLGISIGDKINILSPYGDVT 178
+ I + A LGI GD++ + S G VT
Sbjct: 31 TLWINPETAARLGIKDGDRVEVSSARGKVT 60
>gnl|CDD|30324 cd02792, MopB_CT_Formate-Dh-Na-like, Formate dehydrogenase N, alpha
subunit (Formate-Dh-Na) is a major component of nitrate
respiration in bacteria such as in the E. coli formate
dehydrogenase N (Fdh-N). Fdh-N is a membrane protein
that is a complex of three different subunits and is the
major electron donor to the nitrate respiratory chain.
Also included in this CD is the Desulfovibrio gigas
tungsten formate dehydrogenase, DgW-FDH. In contrast to
Fdh-N, which is a functional heterotrimer, DgW-FDH is a
heterodimer. The DgW-FDH complex is composed of a large
subunit carrying the W active site and one [4Fe-4S]
center, and a small subunit that harbors a series of
three [4Fe-4S] clusters as well as a putative vacant
binding site for a fourth cluster. The smaller subunit
is not included in this alignment. This CD
(MopB_CT_Formate-Dh-Na-like) is of the conserved
molybdopterin_binding C-terminal (MopB_CT) region
present in many, but not all, MopB homologs..
Length = 122
Score = 27.8 bits (62), Expect = 3.2
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 150 VIIGKDLARNLGISIGDKINILSPYGDV 177
V I +LA GI GD + + SP G +
Sbjct: 37 VEISPELAAERGIKNGDMVWVSSPRGKI 64
>gnl|CDD|30306 cd00508, MopB_CT_Fdh-Nap-like, This CD includes formate
dehydrogenases (Fdh) H and N; nitrate reductases, Nap
and Nas; and other related proteins. Formate
dehydrogenase H is a component of the anaerobic formate
hydrogen lyase complex and catalyzes the reversible
oxidation of formate to CO2 with the release of a proton
and two electrons. Formate dehydrogenase N (alpha
subunit) is the major electron donor to the bacterial
nitrate respiratory chain and nitrate reductases, Nap
and Nas, catalyze the reduction of nitrate to nitrite.
This CD (MopB_CT_Fdh-Nap-like) is of the conserved
molybdopterin_binding C-terminal (MopB_CT) region
present in many, but not all, MopB homologs..
Length = 120
Score = 27.8 bits (62), Expect = 3.3
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 150 VIIGKDLARNLGISIGDKINILSPYGDVT 178
V I + A LGI GD + + S G V
Sbjct: 37 VEIHPEDAARLGIKDGDLVRVSSRRGSVV 65
>gnl|CDD|30307 cd02775, MopB_CT, Molybdopterin-Binding, C-terminal (MopB_CT)
domain of the MopB superfamily of proteins, a large,
diverse, heterogeneous superfamily of enzymes that, in
general, bind molybdopterin as a cofactor. The MopB
domain is found in a wide variety of molybdenum- and
tungsten-containing enzymes, including formate
dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of
nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide
reductase (DMSOR), thiosulfate reductase,
formylmethanofuran dehydrogenase, and arsenite oxidase.
Molybdenum is present in most of these enzymes in the
form of molybdopterin, a modified pterin ring with a
dithiolene side chain, which is responsible for ligating
the Mo. In many bacterial and archaeal species,
molybdopterin is in the form of a dinucleotide, with two
molybdopterin dinucleotide units per molybdenum. These
proteins can function as monomers, heterodimers, or
heterotrimers, depending on the protein and organism.
Also included in the MopB superfamily is the
eukaryotic/eubacterial protein domain family of the
75-kDa subunit/Nad11/NuoG (second domain) of respiratory
complex 1/NADH-quinone oxidoreductase which is
postulated to have lost an ancestral formate
dehydrogenase activity and only vestigial sequence
evidence remains of a molybdopterin binding site. This
hierarchy is of the conserved MopB_CT domain present in
many, but not all, MopB homologs..
Length = 101
Score = 27.7 bits (61), Expect = 3.9
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 150 VIIGKDLARNLGISIGDKINILSPYGDVT 178
V I + A LGI GD + + S G V
Sbjct: 25 VEINPEDAAALGIKDGDLVRVESRRGSVV 53
>gnl|CDD|147621 pfam05544, Pro_racemase, Proline racemase. This family consists of
proline racemase (EC 5.1.1.4) proteins which catalyse
the interconversion of L- and D-proline in bacteria.
This family also contains several similar eukaryotic
proteins including a sequence with B-cell mitogenic
properties which has been characterized as a
co-factor-independent proline racemase.
Length = 325
Score = 26.5 bits (59), Expect = 8.7
Identities = 5/26 (19%), Positives = 14/26 (53%)
Query: 86 RLDFIPDVIKVLPFVSGQAFVSGLSS 111
+ ++P +SG+A+++G +
Sbjct: 286 GETEVGGRPAIVPSISGRAWITGTNQ 311
>gnl|CDD|145241 pfam01959, DHQS, 3-dehydroquinate synthase (EC 4.6.1.3).
3-Dehydroquinate synthase is an enzyme in the common
pathway of aromatic amino acid biosynthesis that
catalyses the conversion of
3-deoxy-D-arabino-heptulosonic acid 7-phosphate (DAHP)
into 3-dehydroquinic acid. This synthesis of aromatic
amino acids is an essential metabolic function for most
prokaryotic as well as lower eukaryotic cells, including
plants. The pathway is absent in humans; therefore, DHQS
represents a potential target for the development of
novel and selective antimicrobial agents. Owing to the
threat posed by the spread of pathogenic bacteria
resistant to many currently used antimicrobial drugs,
there is clearly a need to develop new anti-infective
drugs acting at novel targets. A further potential use
for DHQS inhibitors is as herbicides.
Length = 343
Score = 26.5 bits (59), Expect = 8.7
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 210 SLQEAQLYFN-LENAVSGIEVFVKDPDAIEKT 240
S +EA+L LE V G+ + DP+ I+
Sbjct: 121 SAEEAKLALETLEKGVDGVLLDPDDPNEIKAI 152
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.326 0.143 0.419
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,488,967
Number of extensions: 197451
Number of successful extensions: 793
Number of sequences better than 10.0: 1
Number of HSP's gapped: 788
Number of HSP's successfully gapped: 34
Length of query: 270
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 178
Effective length of database: 4,275,709
Effective search space: 761076202
Effective search space used: 761076202
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.6 bits)