RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15749
(164 letters)
>gnl|CDD|119398 cd06530, S26_SPase_I, The S26 Type I signal peptidase (SPase; LepB;
leader peptidase B; leader peptidase I; EC 3.4.21.89)
family members are essential membrane-bound serine
proteases that function to cleave the amino-terminal
signal peptide extension from proteins that are
translocated across biological membranes. The bacterial
signal peptidase I, which is the most intensively
studied, has two N-terminal transmembrane segments
inserted in the plasma membrane and a hydrophilic,
C-terminal catalytic region that is located in the
periplasmic space. Although the bacterial signal
peptidase I is monomeric, signal peptidases of
eukaryotic cells commonly function as oligomeric
complexes containing two divergent copies of the
catalytic monomer. These are the IMP1 and IMP2 signal
peptidases of the mitochondrial inner membrane that
remove leader peptides from nuclear- and
mitochondrial-encoded proteins. Also, two components of
the endoplasmic reticulum signal peptidase in mammals
(18-kDa and 21-kDa) belong to this family and they
process many proteins that enter the ER for retention or
for export to the Golgi apparatus, secretory vesicles,
plasma membranes or vacuole. An atypical member of the
S26 SPase type I family is the TraF peptidase which has
the remarkable activity of producing a cyclic protein of
the Pseudomonas pilin system. The type I signal
peptidases are unique serine proteases that utilize a
serine/lysine catalytic dyad mechanism in place of the
classical serine/histidine/aspartic acid catalytic triad
mechanism.
Length = 85
Score = 73.8 bits (182), Expect = 4e-18
Identities = 33/112 (29%), Positives = 48/112 (42%), Gaps = 28/112 (25%)
Query: 25 VARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIV 84
V G SM+P P D V +N+ + +RGD+V SP DPG+ IIKR++
Sbjct: 2 PVVVPGGSMEPTLQP----GDLVLVNKLSYGFREP--KRGDVVVFKSPGDPGKPIIKRVI 55
Query: 85 GVEGDVVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKA 136
G +V GD+ +S+DS +GPV + K
Sbjct: 56 GY----------------------FVLGDNRNNSLDSRYWGPVPEDDIVGKV 85
>gnl|CDD|233790 TIGR02227, sigpep_I_bact, signal peptidase I, bacterial type. This
model represents signal peptidase I from most bacteria.
Eukaryotic sequences are likely organellar. Several
bacteria have multiple paralogs, but these represent
isozymes of signal peptidase I. Virtually all known
bacteria may be presumed to A related model finds a
simlar protein in many archaea and a few bacteria, as
well as a microsomal (endoplasmic reticulum) protein in
eukaryotes [Protein fate, Protein and peptide secretion
and trafficking].
Length = 163
Score = 75.7 bits (187), Expect = 5e-18
Identities = 41/149 (27%), Positives = 58/149 (38%), Gaps = 38/149 (25%)
Query: 26 ARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVG 85
+V G SM+P D + +N+ +RGDIV P D IKR++G
Sbjct: 23 YKVPGGSMEPTLKE----GDRILVNK--FAYGTSDPKRGDIVVFKDPDDNKNIYIKRVIG 76
Query: 86 VEGDVVS------------------------------TLDYKSNVVKVPQGHIWVEGDHV 115
+ GD V T DY V VP GH +V GD+
Sbjct: 77 LPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTTDYG--PVTVPPGHYFVLGDNR 134
Query: 116 GHSMDSNMFGPVSMGLVTAKASSIIWPPS 144
+S+DS FG V + + K S + +P
Sbjct: 135 DNSLDSRYFGFVPIDDIIGKVSFVFYPFD 163
>gnl|CDD|119396 cd06462, Peptidase_S24_S26, The S24, S26 LexA/signal peptidase
superfamily contains LexA-related and type I signal
peptidase families. The S24 LexA protein domains
include: the lambda repressor CI/C2 family and related
bacterial prophage repressor proteins; LexA (EC
3.4.21.88), the repressor of genes in the cellular SOS
response to DNA damage; MucA and the related UmuD
proteins, which are lesion-bypass DNA polymerases,
induced in response to mitogenic DNA damage; RulA, a
component of the rulAB locus that confers resistance to
UV, and RuvA, which is a component of the RuvABC
resolvasome that catalyzes the resolution of Holliday
junctions that arise during genetic recombination and
DNA repair. The S26 type I signal peptidase (SPase)
family also includes mitochondrial inner membrane
protease (IMP)-like members. SPases are essential
membrane-bound proteases which function to cleave away
the amino-terminal signal peptide from the translocated
pre-protein, thus playing a crucial role in the
transport of proteins across membranes in all living
organisms. All members in this superfamily are unique
serine proteases that carry out catalysis using a
serine/lysine dyad instead of the prototypical
serine/histidine/aspartic acid triad found in most
serine proteases.
Length = 84
Score = 48.0 bits (115), Expect = 3e-08
Identities = 28/103 (27%), Positives = 46/103 (44%), Gaps = 28/103 (27%)
Query: 24 YVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRI 83
+ RV+G SM+P D V +++ +RGDIV P G+ +KR+
Sbjct: 1 FALRVEGDSMEPTIPDG----DLVLVDKS-----SYEPKRGDIVVFRLPG--GELTVKRV 49
Query: 84 VGVEGDVVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGP 126
+G+ G +GH ++ GD+ +S DS + GP
Sbjct: 50 IGLPG----------------EGHYFLLGDN-PNSPDSRIDGP 75
>gnl|CDD|233997 TIGR02754, sod_Ni_protease, nickel-type superoxide dismutase
maturation protease. Members of this protein family are
apparent proteases encoded adjacent to the genes for a
nickel-type superoxide dismutase. This family belongs to
the same larger family (see pfam00717) as signal
peptidase I, an unusual serine protease suggested to
have a Ser/Lys catalytic dyad [Cellular processes,
Detoxification, Protein fate, Protein modification and
repair].
Length = 90
Score = 47.1 bits (112), Expect = 1e-07
Identities = 29/113 (25%), Positives = 44/113 (38%), Gaps = 23/113 (20%)
Query: 26 ARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVG 85
A+V G SM P P D + + W+ K + G++V + P P IIKR+
Sbjct: 1 AKVTGVSMSPTLPP----GDRIIVVPWL-KIFRV-PPIGNVVVVRHPLQPYGLIIKRLAA 54
Query: 86 VEGDVVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKASS 138
V+ +++ GD+ S DS GPV L+ K
Sbjct: 55 VD-----------------DNGLFLLGDNPKASTDSRQLGPVPRSLLLGKVLW 90
>gnl|CDD|223753 COG0681, LepB, Signal peptidase I [Intracellular trafficking and
secretion].
Length = 166
Score = 43.1 bits (101), Expect = 1e-05
Identities = 30/118 (25%), Positives = 45/118 (38%), Gaps = 9/118 (7%)
Query: 25 VARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIV 84
V SM+P N D V + + L+ DI+ V P +IKR++
Sbjct: 33 PVVVPSGSMEPTLN----VGDRVLVKK--FSYGFGKLKVPDII--VLPAVVEGDLIKRVI 84
Query: 85 GVEGD-VVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKASSIIW 141
G+ GD VV D V +P+ + VE D+ H +D + S I
Sbjct: 85 GLRGDIVVFKDDRLYVVPIIPRVYGLVEKDNGKHLVDVIVNANSSRVFGIITKKDYIK 142
>gnl|CDD|151062 pfam10502, Peptidase_S26, Signal peptidase, peptidase S26. This is
a family of membrane signal serine endopeptidases which
function in the processing of newly-synthesised secreted
proteins. Peptidase S26 removes the hydrophobic,
N-terminal, signal peptides as proteins are translocated
across membranes. The active site residues take the form
of a catalytic dyad that is Ser, Lys in subfamily S26A;
the Ser is the nucleophile in catalysis, and the Lys is
the general base.
Length = 138
Score = 38.8 bits (91), Expect = 2e-04
Identities = 21/115 (18%), Positives = 41/115 (35%), Gaps = 36/115 (31%)
Query: 61 LQRGDIVSLVSPKD------------PGQKIIKRIVGVEGDVVSTLDYK--------SNV 100
+ GD+V++ P+ G ++KR++ + G V D S
Sbjct: 22 PEVGDLVAVCPPEPAAFFAAERGYLPRGVPLLKRVLALPGQRVCIRDGLVTIDGVPVSAA 81
Query: 101 VK----------------VPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKASSI 139
++ +P+G +++ S DS FGPV + +A +
Sbjct: 82 LERDRKGRPLPPWQGCRVLPEGELFLMSVTSPDSFDSRYFGPVPASAIIGRARPV 136
>gnl|CDD|216079 pfam00717, Peptidase_S24, Peptidase S24-like.
Length = 69
Score = 34.5 bits (80), Expect = 0.002
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 12/65 (18%)
Query: 27 RVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGV 86
RV G SM+P D + ++ K + +RGDIV V+ D + +KR++G+
Sbjct: 1 RVKGDSMEPTIPDG----DLLLVD----KTSEP--KRGDIV--VARLDGEEATVKRLIGL 48
Query: 87 EGDVV 91
GD++
Sbjct: 49 PGDII 53
>gnl|CDD|182787 PRK10861, PRK10861, signal peptidase I; Provisional.
Length = 324
Score = 37.0 bits (86), Expect = 0.003
Identities = 16/31 (51%), Positives = 21/31 (67%)
Query: 62 QRGDIVSLVSPKDPGQKIIKRIVGVEGDVVS 92
+RGDIV P+DP IKR+VG+ GD V+
Sbjct: 127 KRGDIVVFKYPEDPKLDYIKRVVGLPGDKVT 157
>gnl|CDD|225484 COG2932, COG2932, Predicted transcriptional regulator
[Transcription].
Length = 214
Score = 32.8 bits (75), Expect = 0.046
Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 12/65 (18%)
Query: 24 YVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRI 83
+ RV G SM+P + D + ++ + +RGD V + + D G+ +K++
Sbjct: 124 FALRVTGDSMEPTYEDG----DTLLVDP------GVNTRRGDRVYVET--DGGELYVKKL 171
Query: 84 VGVEG 88
G
Sbjct: 172 QREPG 176
>gnl|CDD|218399 pfam05046, Img2, Mitochondrial large subunit ribosomal protein
(Img2). This family of proteins have been identified as
part of the mitochondrial large ribosomal subunit in
yeast.
Length = 85
Score = 29.5 bits (67), Expect = 0.26
Identities = 16/50 (32%), Positives = 20/50 (40%), Gaps = 10/50 (20%)
Query: 76 GQKIIKRIVGVEGDVV-------STLDYKSN---VVKVPQGHIWVEGDHV 115
G KII I +EGD+ L V G I ++GDHV
Sbjct: 24 GTKIITEIRKIEGDIWALRRDLREYLPEIPKIEVRVNELSGKIEIKGDHV 73
>gnl|CDD|119397 cd06529, S24_LexA-like, Peptidase S24 LexA-like proteins are
involved in the SOS response leading to the repair of
single-stranded DNA within the bacterial cell. This
family includes: the lambda repressor CI/C2 family and
related bacterial prophage repressor proteins; LexA (EC
3.4.21.88), the repressor of genes in the cellular SOS
response to DNA damage; MucA and the related UmuD
proteins, which are lesion-bypass DNA polymerases,
induced in response to mitogenic DNA damage; RulA, a
component of the rulAB locus that confers resistance to
UV, and RuvA, which is a component of the RuvABC
resolvasome that catalyzes the resolution of Holliday
junctions that arise during genetic recombination and
DNA repair. The LexA-like proteins contain two-domains:
an N-terminal DNA binding domain and a C-terminal
domain (CTD) that provides LexA dimerization as well as
cleavage activity. They undergo autolysis, cleaving at
an Ala-Gly or a Cys-Gly bond, separating the
DNA-binding domain from the rest of the protein. In the
presence of single-stranded DNA, the LexA, UmuD and
MucA proteins interact with RecA, activating self
cleavage, thus either derepressing transcription in the
case of LexA or activating the lesion-bypass polymerase
in the case of UmuD and MucA. The LexA proteins are
serine proteases that carry out catalysis using a
serine/lysine dyad instead of the prototypical
serine/histidine/aspartic acid triad found in most
serine proteases. LexA sequence homologs are found in
almost all of the bacterial genomes sequenced to date,
covering a large number of phyla, suggesting both, an
ancient origin and a widespread distribution of lexA
and the SOS response.
Length = 81
Score = 29.1 bits (66), Expect = 0.32
Identities = 16/68 (23%), Positives = 25/68 (36%), Gaps = 13/68 (19%)
Query: 24 YVARVDGTSMQPVFNPDRNHQDYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRI 83
+ RV G SM+P D V ++ + GDIV G+ +KR+
Sbjct: 1 FALRVKGDSMEPTIPDG----DLVLVDP------SDTPRDGDIVVAR---LDGELTVKRL 47
Query: 84 VGVEGDVV 91
G +
Sbjct: 48 QRRGGGRL 55
>gnl|CDD|237773 PRK14636, PRK14636, hypothetical protein; Provisional.
Length = 176
Score = 29.4 bits (66), Expect = 0.55
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 67 VSLVSPKDPGQKIIKRIVGVEGDVVSTLDYKSNVVKVPQGHI 108
++L P D ++ + G++GD V+ D K+ V +P I
Sbjct: 103 IALSEPLDGRKQFRGELKGIDGDTVTIADNKAGEVILPFAAI 144
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 28.5 bits (64), Expect = 1.9
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 47 VFLNR-WIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGDVVSTLDYKSNV 100
F NR W+ D + G+ V+L+ D G IIK I EG V+ L + ++
Sbjct: 563 TFTNRIWLDYADAEAISEGEEVTLM---DWGNAIIKEITKDEGGAVTALSGELHL 614
>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho;
Provisional.
Length = 380
Score = 27.7 bits (62), Expect = 2.5
Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 10/98 (10%)
Query: 45 DYVFLNRWIIKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGD----VVSTLDYKSNV 100
D VF+ +I L+ GD+V V+ +++ R+ V G + +
Sbjct: 45 DDVFVPPALI--RRFNLRTGDVVEGVARPRERYRVLVRVDSVNGTDPEKLARRPHFDDLT 102
Query: 101 VKVPQGHIWVEGDHVGHSMDS-NMFGPVSMG---LVTA 134
P+ + +E SM ++ P+ G L+ A
Sbjct: 103 PLHPRERLRLETGSDDLSMRVVDLVAPIGKGQRGLIVA 140
>gnl|CDD|239188 cd02787, MopB_CT_ydeP, The MopB_CT_ydeP CD includes a group of
related uncharacterized bacterial molybdopterin-binding
oxidoreductase-like domains with a putative
molybdopterin cofactor binding site. This CD is of the
conserved molybdopterin_binding C-terminal (MopB_CT)
region present in many, but not all, MopB homologs.
Length = 112
Score = 26.9 bits (60), Expect = 2.8
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 41 RNHQDYVFLNRWIIKGDDI---GLQRGDIVSLVSPKDPGQKIIKR 82
+D VF+N DDI GL+ GD V L S GQ I R
Sbjct: 27 FGRRDVVFMNP-----DDIARLGLKAGDRVDLESAFGDGQGRIVR 66
>gnl|CDD|131818 TIGR02771, TraF_Ti, conjugative transfer signal peptidase TraF.
This protein is found in apparent operons encoding
elements of conjugative transfer systems. This family is
homologous to a broader family of signal (leader)
peptidases such as lepB. This family is present in both
Ti-type and I-type conjugative systems.
Length = 171
Score = 27.4 bits (61), Expect = 3.2
Identities = 34/171 (19%), Positives = 57/171 (33%), Gaps = 38/171 (22%)
Query: 4 IFKSMLVGIPISITFCDSIGYV-ARVDGTSMQPVF--------NPDRNHQDYVFLNRWII 54
IF + G+ +S + V AR++ T P+ +R DYV
Sbjct: 3 IFVLGIAGLALSGLTILGLYCVGARINTTKSLPLGLYWTTSSKPVERG--DYVVFCPPDN 60
Query: 55 KGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGDVVSTLDYKSNV-------------- 100
+ +RG + + P G ++KR++G+ GD V+ +
Sbjct: 61 PQFEEARERGYLREGLCPGGFGP-LLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATD 119
Query: 101 -----------VKVPQGHIWVEGDHVGHSMDSNMFGPVSMGLVTAKASSII 140
+P G V S DS FGP+S V + +
Sbjct: 120 SSGRPLPPFPEGVIPPGFFVVHDTS-PTSFDSRYFGPISREQVIGRVKPLF 169
>gnl|CDD|212705 cd11771, SH3_Pex13p_fungal, Src Homology 3 domain of fungal
peroxisomal membrane protein Pex13p. Pex13p, located
in the peroxisomal membrane, contains two transmembrane
regions and a C-terminal SH3 domain. It binds to the
peroxisomal targeting type I (PTS1) receptor Pex5p and
the docking factor Pex14p through its SH3 domain. It is
essential for both PTS1 and PTS2 protein import
pathways into the peroxisomal matrix. Pex13p binds
Pex14p, which contains a PxxP motif, in a classical
fashion to the proline-rich ligand binding site of its
SH3 domain. It binds the WxxxF/Y motif of Pex5p in a
novel site that does not compete with Pex14p binding.
SH3 domains are protein interaction domains that bind
to proline-rich ligands with moderate affinity and
selectivity, preferentially to PxxP motifs. They play
versatile and diverse roles in the cell including the
regulation of enzymes, changing the subcellular
localization of signaling pathway components, and
mediating the formation of multiprotein complex
assemblies.
Length = 60
Score = 25.3 bits (56), Expect = 4.1
Identities = 8/18 (44%), Positives = 15/18 (83%)
Query: 58 DIGLQRGDIVSLVSPKDP 75
++ L++GDIV+++S DP
Sbjct: 16 ELSLKKGDIVAVLSKTDP 33
>gnl|CDD|233257 TIGR01064, pyruv_kin, pyruvate kinase. This enzyme is a
homotetramer. Some forms are active only in the presence
of fructose-1,6-bisphosphate or similar phosphorylated
sugars [Energy metabolism, Glycolysis/gluconeogenesis].
Length = 473
Score = 27.2 bits (61), Expect = 4.2
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 9/55 (16%)
Query: 54 IKGDDIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGDVVSTLDYKSNVVKVPQGHI 108
IKG + L++GD V + + D + G E DV +DYK V +G
Sbjct: 76 IKGGPVKLKKGDKVIITT--DDIKGE-----GDEEDVS--VDYKGLTKDVSEGDK 121
>gnl|CDD|136048 PRK06781, PRK06781, amidophosphoribosyltransferase; Provisional.
Length = 471
Score = 26.9 bits (59), Expect = 5.9
Identities = 13/52 (25%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 79 IIKRIVGVEGDVVSTLDYKSNVVKVPQGHIWVEGDHVGHSMDSNMFGPVSMG 130
+IKR + ++ ++ N VK ++ + G+ + ++D N F P+S+G
Sbjct: 144 LIKR--STKDSLIESVKEALNKVKGAFAYLLLTGNEMIVALDPNGFRPLSIG 193
>gnl|CDD|132824 cd07291, PX_SNX5, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 5. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system.
The PX domain of SNXs binds PIs and targets the protein
to PI-enriched membranes. SNXs differ from each other
in PI-binding specificity and affinity, and the
presence of other protein-protein interaction domains,
which help determine subcellular localization and
specific function in the endocytic pathway. SNX5,
abundantly expressed in macrophages, regulates
macropinocytosis, a process that enables cells to
internalize large amounts of external solutes. It may
also be a component of the retromer complex, a membrane
coat multimeric complex required for endosomal
retrieval of lysosomal hydrolase receptors to the
Golgi, acting as a mammalian equivalent of yeast
Vsp17p. It also binds the Fanconi anaemia
complementation group A protein (FANCA). SNX5 harbors a
Bin/Amphiphysin/Rvs (BAR) domain, which detects
membrane curvature, C-terminal to the PX domain,
similar to other sorting nexins including SNX1-2. The
PX-BAR structural unit helps determine the specific
membrane-targeting of some SNXs. The PX domain of SNX5
binds phosphatidylinositol-3-phosphate (PI3P) and
PI(3,4)P2. SNX5 is localized to a subdomain of early
endosome and is recruited to the plasma membrane
following EGF stimulation and elevation of PI(3,4)P2
levels.
Length = 141
Score = 26.2 bits (57), Expect = 6.2
Identities = 15/55 (27%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 7 SMLVGIPISITFCDSIGYVARVDGT--SMQ-PVFNPDRNHQDYVFLNRWIIKGDD 58
S+ + IP +++ D + + T S Q P F+ R H+D+++L+ +I+ +D
Sbjct: 2 SLQIDIPDALSERDKVKFTVHTKTTLPSFQSPDFSVTRQHEDFIWLHDALIETED 56
>gnl|CDD|226360 COG3840, ThiQ, ABC-type thiamine transport system, ATPase component
[Coenzyme metabolism].
Length = 231
Score = 26.5 bits (59), Expect = 6.5
Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 23/76 (30%)
Query: 58 DIGLQRGDIVSLVSPKDPGQKIIKRIVGVEGDVVSTLDYKSNVV---KVPQ-GHIWVEGD 113
D+ + G+IV+++ P G+ STL N++ + P G I + G
Sbjct: 19 DLTVPAGEIVAILGPSGAGK--------------STL---LNLIAGFETPASGEILINGV 61
Query: 114 HVGHSMDSNMFGPVSM 129
S + PVSM
Sbjct: 62 DHTASPPAER--PVSM 75
>gnl|CDD|236554 PRK09536, btuD, corrinoid ABC transporter ATPase; Reviewed.
Length = 402
Score = 26.7 bits (59), Expect = 7.1
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 53 IIKGDDIGLQRGDIVSLVSPKDPGQKIIKRI-----------VGVEGDVVSTLDYKS--- 98
++ G D+ ++ G +V LV P G+ + R V V GD V L ++
Sbjct: 18 VLDGVDLSVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAGTVLVAGDDVEALSARAASR 77
Query: 99 NVVKVPQG 106
V VPQ
Sbjct: 78 RVASVPQD 85
>gnl|CDD|215182 PLN02321, PLN02321, 2-isopropylmalate synthase.
Length = 632
Score = 26.5 bits (58), Expect = 8.4
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 43 HQDYVFLNRW---IIKGDDIGLQRGDIVSLVSPKDPGQKIIK 81
HQD + ++ II +DIGL RG+ +V K G+ +K
Sbjct: 393 HQDGMLKHKGTYEIISPEDIGLFRGNDAGIVLGKLSGRHALK 434
>gnl|CDD|180556 PRK06407, PRK06407, ornithine cyclodeaminase; Provisional.
Length = 301
Score = 26.1 bits (57), Expect = 9.5
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 119 MDSNMFGPVSMGLVTAKASSIIWP 142
++N G + G VTA A+SI+
Sbjct: 92 FEANRLGQIRTGAVTAYATSILHK 115
>gnl|CDD|217116 pfam02576, DUF150, Uncharacterized BCR, YhbC family COG0779.
Length = 140
Score = 25.7 bits (57), Expect = 10.0
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 67 VSLVSPKDPGQKIIKRIVGVEGD--VVSTLDYKSNVVKVPQGHI 108
VSL P D + +++ V+GD + D + V++P I
Sbjct: 92 VSLKEPIDGRKNFTGKLLEVDGDTVTIEVDDKERKRVEIPFADI 135
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
0.322 0.139 0.432
Gapped
Lambda K H
0.267 0.0816 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,449,191
Number of extensions: 762849
Number of successful extensions: 764
Number of sequences better than 10.0: 1
Number of HSP's gapped: 752
Number of HSP's successfully gapped: 37
Length of query: 164
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 74
Effective length of database: 6,945,742
Effective search space: 513984908
Effective search space used: 513984908
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 (21.9 bits)
S2: 55 (24.8 bits)