RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= 537021.9.peg.1080_1
(110 letters)
>gnl|CDD|146059 pfam03237, Terminase_6, Terminase-like family. This family
represents a group of terminase proteins.
Length = 380
Score = 32.0 bits (73), Expect = 0.033
Identities = 11/25 (44%), Positives = 12/25 (48%)
Query: 1 MAGNQLGKTLAGAAEAAMHLSGCYP 25
+ Q GKT A A EA H G P
Sbjct: 3 LGSRQSGKTFAFAREALRHALGNGP 27
>gnl|CDD|173801 cd07475, Peptidases_S8_C5a_Peptidase, Peptidase S8 family domain in
Streptococcal C5a peptidases. Streptococcal C5a
peptidase (SCP), is a highly specific protease and
adhesin/invasin. The subtilisin-like protease domain is
located at the N-terminus and contains a
protease-associated domain inserted into a loop. There
are three fibronectin type III (Fn) domains at the
C-terminus. SCP binds to integrins with the help of
Arg-Gly-Asp motifs which are thought to stabilize
conformational changes required for substrate binding.
Peptidases S8 or Subtilases are a serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 346
Score = 27.2 bits (61), Expect = 1.1
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 59 GEPMSPDQQGSGMIPANKVLN 79
SP +QG+G+I K +
Sbjct: 326 KTYYSPRRQGAGLIDVAKAIA 346
>gnl|CDD|31988 COG1803, MgsA, Methylglyoxal synthase [Carbohydrate transport and
metabolism].
Length = 142
Score = 26.4 bits (58), Expect = 1.6
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 26 SWWRGYR-FLQPIVMVAGSVTYELTRDG----IQRLLLGEPMSPDQQGSGMIPANKV 77
++ + ++ L + A T L ++ + RL G PM DQQ +I K+
Sbjct: 21 NFVQAHKELLSRHDLYATGTTGGLIQEATGLNVHRLKSG-PMGGDQQIGALIAEGKI 76
>gnl|CDD|31521 COG1330, RecC, Exonuclease V gamma subunit [DNA replication,
recombination, and repair].
Length = 1078
Score = 26.1 bits (57), Expect = 2.1
Identities = 11/29 (37%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 50 RDGIQRLLLGEPMSPDQQ-GSGMIPANKV 77
R G++R+LLG M D G++P ++V
Sbjct: 492 RFGLERMLLGYAMDEDAGEWQGVLPYDEV 520
>gnl|CDD|39179 KOG3976, KOG3976, KOG3976, Mitochondrial F1F0-ATP synthase, subunit
b/ATP4 [Energy production and conversion].
Length = 247
Score = 26.1 bits (57), Expect = 2.1
Identities = 8/50 (16%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 61 PMSPDQQGSGMIPANKVLNMTRRSNIAGAYSTVT--VRHLSGRDIGFIIE 108
P P + G+IP + ++ + G Y + + +++ I +
Sbjct: 47 PEYPGKVRLGIIPDEWFTFLYTKTGVTGPYLFGAGLIAYAISKELYVIED 96
>gnl|CDD|146611 pfam04072, LCM, Leucine carboxyl methyltransferase. Family of
leucine carboxyl methyltransferases EC:2.1.1.-. This
family may need divides a the full alignment contains a
significantly shorter mouse sequence.
Length = 175
Score = 25.2 bits (56), Expect = 4.1
Identities = 9/38 (23%), Positives = 15/38 (39%), Gaps = 5/38 (13%)
Query: 25 PSWWR-----GYRFLQPIVMVAGSVTYELTRDGIQRLL 57
W G+ +P + VA + LT + + LL
Sbjct: 134 DDWLDALRAAGFDPSRPTLFVAEGLLMYLTEEAVDALL 171
>gnl|CDD|173814 cd07489, Peptidases_S8_5, Peptidase S8 family domain,
uncharacterized subfamily 5. gap in seq This family is
a member of the Peptidases S8 or Subtilases serine endo-
and exo-peptidase clan. They have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. The
stability of subtilases may be enhanced by calcium, some
members have been shown to bind up to 4 ions via binding
sites with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 312
Score = 24.9 bits (55), Expect = 5.4
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 57 LLGEPMSPDQQGSGMIPANKVLNMT 81
L + QQG+G++ A K L T
Sbjct: 276 ALPDLAPVAQQGAGLVNAYKALYAT 300
>gnl|CDD|153115 cd01057, AAMH_A, Aromatic and Alkene Monooxygenase Hydroxylase,
subunit A, ferritin-like diiron-binding domain.
Aromatic and Alkene Monooxygenase Hydroxylases, subunit
A (AAMH_A). Subunit A of the soluble hydroxylase of
multicomponent, aromatic and alkene monooxygenases are
members of a superfamily of ferritin-like iron-storage
proteins. AAMH exists as a hexamer (an
alpha2-beta2-gamma2 homodimer) with each alpha-subunit
housing one nonheme diiron center embedded in a
four-helix bundle. The N-terminal domain of the alpha-
and noncatalytic beta-subunits possess nearly identical
folds, however, the beta-subunit lacks critical diiron
ligands and a C-terminal domain found in the
alpha-subunit. Methane monooxygenase is a multicomponent
enzyme found in methanotrophic bacteria that catalyzes
the hydroxylation of methane and higher alkenes (as
large as octane). Phenol monooxygenase, found in a
diverse group of bacteria, catalyses the hydroxylation
of phenol, chloro- and methyl-phenol and naphthol. Both
enzyme systems consist of three components: the
hydroxylase, a coupling protein and a reductase. In the
MMO hydroxylase, dioxygen and substrate interact with
the diiron center in a hydrophobic cavity at the active
site. The reductase component and protein coupling
factor provide electrons from NADH for reducing the
oxidized binuclear iron-oxo cluster to its reduced form.
Reaction with dioxygen produces a peroxy-bridged complex
and dehydration leads to the formation of complex Q,
which is thought to be the oxygenating species that
carries out the insertion of an oxygen atom into a C-H
bond of the substrate. The toluene monooxygenase
systems, toluene 2-, 3-, and 4-monooxygenase, are
similar to MMO but with an additional component, a
Rieske-type ferredoxin. The alkene monooxygenase from
Xanthobacter strain Py2 is closely related to aromatic
monooxygenases and catalyzes aromatic monohydroxylation
of benzene, toluene, and phenol. Alkane
omega-hydroxylase (AlkB) and xylene monooxygenase are
members of a distinct class of integral membrane diiron
proteins and are not included in this CD.
Length = 465
Score = 24.6 bits (54), Expect = 6.1
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 27 WWRGYRFLQPIV 38
+WR +R +V
Sbjct: 248 FWRQHRLFDALV 259
>gnl|CDD|133035 cd04192, GT_2_like_e, Subfamily of Glycosyltransferase Family GT2
of unknown function. GT-2 includes diverse families of
glycosyltransferases with a common GT-A type structural
fold, which has two tightly associated beta/alpha/beta
domains that tend to form a continuous central sheet of
at least eight beta-strands. These are enzymes that
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. Glycosyltransferases have been
classified into more than 90 distinct sequence based
families.
Length = 229
Score = 24.2 bits (53), Expect = 7.6
Identities = 9/26 (34%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 25 PSWW-RGYRFLQ--PIVMVAGSVTYE 47
+W F+Q I +VAG V Y
Sbjct: 97 SNWLLTFVAFIQKEQIGLVAGPVIYF 122
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
0.320 0.135 0.407
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,296,256
Number of extensions: 58960
Number of successful extensions: 107
Number of sequences better than 10.0: 1
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 10
Length of query: 110
Length of database: 6,263,737
Length adjustment: 76
Effective length of query: 34
Effective length of database: 4,621,453
Effective search space: 157129402
Effective search space used: 157129402
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 (21.8 bits)
S2: 51 (23.3 bits)