RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4586
(294 letters)
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 31.5 bits (71), Expect = 0.56
Identities = 15/59 (25%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 210 SLSTPVLMNLLNRKQPLWPNAANPQQGQENRD--PLPNPWNPGSNPSSPRPGNTTTGTL 266
++ P + +L+ R+ P N D P P P +P PGNT + L
Sbjct: 583 TIDAPQIDDLMARRDVRPPAGWEEPGASNNSDDNGTPKAPRPVDEPRTPNPGNTMSEQL 641
>gnl|CDD|147870 pfam05952, ComX, Bacillus competence pheromone ComX. Natural
genetic competence in Bacillus subtilis is controlled by
quorum-sensing (QS). The ComP- ComA two-component system
detects the signalling molecule ComX, and this signal is
transduced by a conserved phosphotransfer mechanism.
ComX is synthesised as an inactive precursor and is then
cleaved and modified by ComQ before export to the
extracellular environment.
Length = 56
Score = 28.1 bits (63), Expect = 0.93
Identities = 7/26 (26%), Positives = 16/26 (61%), Gaps = 6/26 (23%)
Query: 95 MQDLIERNPEINHMLNNPELLRQTME 120
MQ+++ N+++ NPE+L++
Sbjct: 1 MQEIV------NYLVKNPEVLKKLKN 20
>gnl|CDD|220779 pfam10488, PP1c_bdg, Phosphatase-1 catalytic subunit binding
region. This conserved C-terminus appears to be a
protein phosphatase-1 catalytic subunit (PP1C) binding
region, which may in some circumstances also be
retroviral in origin since it is found in both herpes
simplex virus and in mouse and man. This domain is found
in Gadd-34 apoptosis-associated proteins as well as the
constitutive repressor of eIF2-alpha
phosphorylation/protein phosphatase 1, regulatory
(inhibitor) subunit 15b, otherwise known as CReP.
Diverse stressful conditions are associated with
phosphorylation of the {alpha} subunit of eukaryotic
translation initiation factor 2 (eIF2{alpha}) on serine
51. This signaling event, which is conserved from yeast
to mammals, negatively regulates the guanine nucleotide
exchange factor, eIF2-B and inhibits the recycling of
eIF2 to its active GTP bound form. In mammalian cells
eIF2{alpha} phosphorylation emerges as an important
event in stress signaling that impacts on gene
expression at both the translational and transcriptional
levels.
Length = 307
Score = 30.4 bits (68), Expect = 1.0
Identities = 20/103 (19%), Positives = 34/103 (33%), Gaps = 14/103 (13%)
Query: 171 FSRN--PYESNSSGGNPGRVKAPFRRSKRYLGPRQCARPSSSLS----TPVLMNLLNRKQ 224
F +N PY NP KAPF+ S + + ++S + L+ K
Sbjct: 146 FCQNDDPY-------NPLNFKAPFQTSGKNPKGSKHDSKTNSEQNVAIRSLKSTRLSCKA 198
Query: 225 PLWPNAANPQQGQENRDPL-PNPWNPGSNPSSPRPGNTTTGTL 266
L + + + + L PW +S + T
Sbjct: 199 QLLGKQESHCPRKLSVETLSVVPWKRHVGVTSVQGNRHTHPKR 241
>gnl|CDD|212493 cd08932, HetN_like_SDR_c, HetN oxidoreductase-like, classical (c)
SDR. This subgroup includes Anabaena sp. strain PCC
7120 HetN, a putative oxidoreductase involved in
heterocyst differentiation, and related proteins. SDRs
are a functionally diverse family of oxidoreductases
that have a single domain with a structurally conserved
Rossmann fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 223
Score = 29.6 bits (67), Expect = 1.7
Identities = 19/79 (24%), Positives = 30/79 (37%), Gaps = 10/79 (12%)
Query: 60 LRNPEMLRTIL----DNPLVQGMLNDPNSMRNLIMSNPQMQDLIERNPEINHMLNNPELL 115
LRNPE L + D V DP R L + L +R I+ +++N +
Sbjct: 31 LRNPEDLAALSASGGDVEAVPYDARDPEDARAL------VDALRDRFGRIDVLVHNAGIG 84
Query: 116 RQTMEMARNPSMLQELMRT 134
R T + + L+
Sbjct: 85 RPTTLREGSDAELEAHFSI 103
>gnl|CDD|212018 cd11628, HR1_CIP4_FNBP1L, Protein kinase C-related kinase homology
region 1 (HR1) Rho-binding domain of vertebrate
Cdc42-Interacting Protein 4 and FormiN Binding Protein
1-Like. CIP4 and FNBP1L are Cdc42 effectors that bind
Wiskott-Aldrich syndrome protein (WASP) and function in
endocytosis. FNBP1L, also called Toca-1 (Transducer of
Cdc42-dependent actin assembly 1), forms a complex with
neural WASP; the complex induces the formation of
filopodia and endocytic vesicles. FNBP1L is required for
Cdc42-induced actin assembly and is essential for
autophagy of intracellular pathogens. CIP4 may also play
a role in phagocytosis. It functions downstream of Cdc42
in PDGF-dependent actin reorganization and cell
migration, and also regulates the activity of PDGFRbeta.
It uses Src as a substrate in regulating the
invasiveness of breast tumor cells. CIP4 may also play a
role in the pathogenesis of Huntington's disease. CIP4
and FNBP1L contain an N-terminal F-BAR domain, a central
HR1 domain, and a C-terminal SH3 domain. HR1 domains are
anti-parallel coiled-coil (ACC) domains that bind small
GTPases from the Rho family; the HR1 domain of CIP4
binds Cdc42 and TC10. Translocation of CIP4 is
facilitated by its binding to TC10 at the plasma
membrane.
Length = 81
Score = 28.0 bits (62), Expect = 1.8
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 83 NSMRNLIMSNPQMQDLIERNPEINHMLNNPELLRQTMEMARNPSMLQE 130
M+++ NPQM D P+I +N + LR E+ + + L E
Sbjct: 31 MKMKDVYEKNPQMGDPASLQPQIAETASNIDRLR--GELHKYEAWLAE 76
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
Length = 1355
Score = 29.7 bits (66), Expect = 2.7
Identities = 30/130 (23%), Positives = 45/130 (34%), Gaps = 18/130 (13%)
Query: 143 ESIPGGYSALQRMYRDIQEPMLNAATQQFSRNPYESNSSGGNPGRVKAPFRRSKRYLGPR 202
P A Q+ Y+ Q+P+ Q + P P + AP +Y P+
Sbjct: 752 VQQPQQPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAP---QPQYQQPQ 808
Query: 203 QCARPSSSLSTPVLMNLLNRKQPLWPNAANPQQGQENRDPLPNPWNPGSNPSSPRPGNTT 262
Q P +QP P A PQ Q + P P + +P R G++
Sbjct: 809 QPVAPQPQY-----------QQPQQPVAPQPQYQQPQQPVAPQPQDTLLHPLLMRNGDSR 857
Query: 263 TGTLPANTPT 272
P + PT
Sbjct: 858 ----PLHKPT 863
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 29.5 bits (66), Expect = 2.7
Identities = 22/102 (21%), Positives = 28/102 (27%), Gaps = 7/102 (6%)
Query: 171 FSRNPYESNSSGGNPGRVKAPFRRSKRYLGPRQCARPSSSLSTPVLMNLLNRKQPLWPNA 230
R P S + AP R R L +R + S + P + P
Sbjct: 2862 VRRRP----PSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPP 2917
Query: 231 ANPQQGQENRDPLPNPWNPGSNPSSPRPGNTTTGTLPANTPT 272
Q P P P P P TT A P+
Sbjct: 2918 QPQPQPPPPPQPQPPPPPPPRPQPPLAP---TTDPAGAGEPS 2956
>gnl|CDD|128966 smart00727, STI1, Heat shock chaperonin-binding motif.
Length = 41
Score = 26.1 bits (58), Expect = 3.2
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 102 NPEINHMLNNPELLRQTMEMARNPSMLQELM 132
+PE+ L NP++ +M +NP ML +++
Sbjct: 1 DPEMALRLQNPQVQSLLQDMQQNPDMLAQML 31
Score = 26.1 bits (58), Expect = 3.2
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 10/51 (19%)
Query: 81 DPNSMRNLIMSNPQMQDLIERNPEINHMLNNPELLRQTMEMARNPSMLQEL 131
DP L + NPQ+Q L++ M NP++L Q ++ NP +LQ +
Sbjct: 1 DPEMA--LRLQNPQVQSLLQD------MQQNPDMLAQMLQE--NPQLLQLI 41
Score = 24.9 bits (55), Expect = 7.4
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 62 NPEMLRTILDNPLVQGML----NDPNSMRNLIMSNPQMQDLI 99
+PEM L NP VQ +L +P+ + ++ NPQ+ LI
Sbjct: 1 DPEM-ALRLQNPQVQSLLQDMQQNPDMLAQMLQENPQLLQLI 41
>gnl|CDD|225243 COG2368, COG2368, Aromatic ring hydroxylase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 493
Score = 28.8 bits (65), Expect = 3.3
Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 25 KSIYLDYVLGLGGLDALGMGSANFMELQQRMQTEMLRNPEMLRTILDNPLVQGMLNDPNS 84
K++ LD++LG L A G F +Q+++ EM+ E++ + D + N +
Sbjct: 304 KAVKLDFILGAAYLIAETNGVEEFRHIQEKL-GEMIALLELMWALSDAAAEEAQKNPNGA 362
Query: 85 MR-NLIMSN 92
N +N
Sbjct: 363 WLPNPAYAN 371
>gnl|CDD|215643 PLN03241, PLN03241, magnesium chelatase subunit H; Provisional.
Length = 1315
Score = 29.1 bits (65), Expect = 4.0
Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 9/68 (13%)
Query: 122 ARNPSMLQELMRTQDRALSNLESIPGGYSALQRMYRDIQEPMLN-AATQQFSRNPYESNS 180
AR P +LQ+L++T +R + ++S+ G + DIQE N A + + E +
Sbjct: 1110 AR-PEVLQKLLKTTERVVQEIDSVEYGLT-------DIQEYYANTGALKAAAEAAKEIDG 1161
Query: 181 SGGNPGRV 188
G +V
Sbjct: 1162 PTGKKKKV 1169
>gnl|CDD|223294 COG0216, PrfA, Protein chain release factor A [Translation,
ribosomal structure and biogenesis].
Length = 363
Score = 28.7 bits (65), Expect = 4.2
Identities = 12/67 (17%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 85 MRNLIMSNPQMQDLIERNPEINHMLNNPELL---RQTMEMARNPSMLQELMRTQDR---A 138
M+ ++ +++ L+ER E+ +L++PE++ + ++++ + L+ ++ A
Sbjct: 1 MKPSLLE--KLESLLERYEELEALLSDPEVISDPDEYRKLSKEYAELEPIVEKYREYKKA 58
Query: 139 LSNLESI 145
+LE
Sbjct: 59 QEDLEDA 65
>gnl|CDD|240129 cd04859, Prim_Pol, Prim_Pol: Primase-polymerase (primpol) domain of
the type found in bifunctional replicases from archaeal
plasmids, including ORF904 protein of the crenarchaeal
plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol).
These primpol domains belong to the archaeal/eukaryal
primase (AEP) superfamily. This group includes archaeal
plasmids and bacteriophage AEPs. The ORF904 protein is a
multifunctional protein having ATPase, primase and DNA
polymerase activity, and may play a role in the
replication of the archaeal plasmid. The pRN1 primpol
domain exhibits DNA polymerase and primase activities; a
cluster of active site residues (three acidic residues,
and a histidine) is required for both these activities.
For pRN1 primpol, the primase activity prefers dNTPs to
rNTPs; incorporation of dNTPs requires rNTP as cofactor.
The pRN1 primpol contains an unusual zinc-binding stem,
which is not conserved in other members of this group.
Length = 152
Score = 27.8 bits (62), Expect = 4.3
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 264 GTLPANTPTMTTGQGGR 280
G LP T T+ TG GGR
Sbjct: 73 GKLPPLTLTVRTGSGGR 89
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC protein.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 378
Score = 28.3 bits (63), Expect = 5.2
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 22/80 (27%)
Query: 36 GGLDALGMGSAN--FMELQQRMQTEMLRNPEMLRTILDNPLVQGMLNDPNSMRNLIMSNP 93
G + L F +L+Q +Q +NP++L +L + + NP
Sbjct: 243 QGGNPLEFLRNQPQFQQLRQVVQ----QNPQLLPPLL---------------QQIGQENP 283
Query: 94 QMQDLIERNPE-INHMLNNP 112
Q+ I ++PE MLN P
Sbjct: 284 QLLQQISQHPEQFLQMLNEP 303
Score = 27.6 bits (61), Expect = 8.8
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 91 SNPQMQDL---IERNPEINHMLNNPELLRQTMEMARNPSMLQELMRTQDRALSNLESIPG 147
+ PQ Q L +++NP++ P LL+Q NP +LQ++ + ++ L L G
Sbjct: 253 NQPQFQQLRQVVQQNPQLL-----PPLLQQIG--QENPQLLQQISQHPEQFLQMLNEPVG 305
Query: 148 G 148
Sbjct: 306 E 306
>gnl|CDD|173885 cd08520, PBP2_NikA_DppA_OppA_like_21, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 468
Score = 28.1 bits (63), Expect = 5.7
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 77 GMLNDPNSMRNLIMSNPQMQDLIERNPEINHMLNNPELLRQTMEMARNPSMLQELMRTQD 136
G+ DP+ +R + SN + N E+N LLRQ ++ +P +EL+
Sbjct: 388 GIGGDPDILREVYSSNTKKSARGYDNEELN------ALLRQQLQ-EMDPEKRKELVFEIQ 440
Query: 137 RALS-NLESIP 146
+ L IP
Sbjct: 441 ELYAEELPMIP 451
>gnl|CDD|223716 COG0643, CheA, Chemotaxis protein histidine kinase and related
kinases [Cell motility and secretion / Signal
transduction mechanisms].
Length = 716
Score = 28.1 bits (63), Expect = 6.2
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 3/54 (5%)
Query: 120 EMARNPSMLQELMRTQDRALSNLESIPGGYSALQRMYRDIQEPMLNAATQQFSR 173
E+ S L +L D L+ L R+ D+Q+ ++ F +
Sbjct: 344 ELVITRSRLSQLASELDEVREELDE---ALRQLSRLTTDLQDEVMKIRMVPFEQ 394
>gnl|CDD|107029 PHA01351, PHA01351, putative minor structural protein.
Length = 1070
Score = 28.4 bits (63), Expect = 6.4
Identities = 23/85 (27%), Positives = 43/85 (50%), Gaps = 4/85 (4%)
Query: 91 SNPQMQDLIERNPEINHMLNNPELLRQTMEMARNPSMLQELMRTQDRALSNLESIPGGYS 150
N Q++ L+ + IN L + +L+ ++ + + LQEL T +ALS E +
Sbjct: 931 QNLQLESLL-KQYGINEALLS--VLKLFAQVRKIVTGLQELYLTPSKALSISEYVSNPQQ 987
Query: 151 ALQRMYRDIQEPM-LNAATQQFSRN 174
LQ+++ + Q P L +++RN
Sbjct: 988 LLQKVFAEFQIPQELQNTYFEYARN 1012
>gnl|CDD|234801 PRK00591, prfA, peptide chain release factor 1; Validated.
Length = 359
Score = 27.7 bits (63), Expect = 6.6
Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 11/68 (16%)
Query: 94 QMQDLIERNPEINHMLNNPELLRQTMEMARNPSMLQELMRTQDRALSNLESIPGGYSALQ 153
+++ L ER E+ +L++PE+ + ++L + + LE I Y +
Sbjct: 7 KLEALEERYEELEALLSDPEV-------ISDQKRFRKLSKEY----AELEPIVEAYREYK 55
Query: 154 RMYRDIQE 161
+ D++E
Sbjct: 56 QAQEDLEE 63
>gnl|CDD|219969 pfam08687, ASD2, Apx/Shroom domain ASD2. This region is found in
the actin binding protein Shroom which mediates apical
contriction in epithelial cells and is required for
neural tube closure.
Length = 274
Score = 27.8 bits (62), Expect = 7.2
Identities = 13/59 (22%), Positives = 20/59 (33%)
Query: 184 NPGRVKAPFRRSKRYLGPRQCARPSSSLSTPVLMNLLNRKQPLWPNAANPQQGQENRDP 242
A + ++R G + S ST + K L + QQGQ +P
Sbjct: 35 PKDESLAAMKPARREAGEKAAGASESGSSTLTYYSTSAAKAELLIKMKDMQQGQSEPEP 93
>gnl|CDD|219977 pfam08700, Vps51, Vps51/Vps67. This family includes a presumed
domain found in a number of components of vesicular
transport. The VFT tethering complex (also known as GARP
complex, Golgi associated retrograde protein complex,
Vps53 tethering complex) is a conserved eukaryotic
docking complex which is involved recycling of proteins
from endosomes to the late Golgi. Vps51 (also known as
Vps67) is a subunit of VFT and interacts with the SNARE
Tlg1. Cog1_N is the N-terminus of the Cog1 subunit of
the eight-unit Conserved Oligomeric Golgi (COG) complex
that participates in retrograde vesicular transport and
is required to maintain normal Golgi structure and
function. The subunits are located in two lobes and Cog1
serves to bind the two lobes together probably via the
highly conserved N-terminal domain of approximately 85
residues.
Length = 87
Score = 26.1 bits (58), Expect = 7.4
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 83 NSMRNLIMSNPQMQDLIERNPEINHMLNNPELLRQTM-EMARNPSMLQEL 131
+R L+ N +DLI+ I+ M + E L Q + E+ + L
Sbjct: 40 EELRQLVYEN--YRDLIKAADTISKMKSEMESLSQKLSELKQALEKLSSK 87
>gnl|CDD|235674 PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase
subunit; Reviewed.
Length = 372
Score = 27.8 bits (63), Expect = 8.0
Identities = 13/41 (31%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 66 LRTILDNPLVQGMLNDPNSMRNLI--MSNPQMQDLIERNPE 104
LR IL PL L P M NL+ D + P
Sbjct: 287 LRAILGLPLGTTRLLSPAVMVNLLGDDWLEPRWDALLALPG 327
>gnl|CDD|234485 TIGR04154, archaeo_STT3, oligosaccharyl transferase, archaeosortase
A system-associated. Members of this protein family
occur, one to three members per genome, in the same
species of Euryarchaeota as contain the predicted
protein-sorting enzyme archaeosortase (TIGR04125) and
its cognate protein-sorting signal PGF-CTERM
(TIGR04126).
Length = 815
Score = 27.7 bits (62), Expect = 8.2
Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 258 PGNTTTGTLPANTPT----MTTGQGGRF 281
G T TGT PA T T +TT G F
Sbjct: 732 KGATITGTAPAETVTAEVELTTNTGRTF 759
>gnl|CDD|236646 PRK10064, PRK10064, catecholate siderophore receptor CirA;
Provisional.
Length = 663
Score = 27.5 bits (61), Expect = 9.0
Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 135 QDRALSNLESIPGGYSA--LQRMYR-----DIQEPMLNAATQQFSRNPYESNSSG 182
Q RA S PGGY+ ++ ++ +LN + SR+ Y N G
Sbjct: 598 QKRADSATAKTPGGYTIWNTGAAWQVTKDVKLRAGVLNLGDKDLSRDDYSYNEDG 652
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 27.5 bits (61), Expect = 9.2
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 6/77 (7%)
Query: 201 PRQCARPSSSLSTPVLMNLLNRKQPLWPNAANPQQGQENRDPLPNPWNPGSNPSSPRPGN 260
Q A+P+++ +PV +P AAN + R+ P P PRP
Sbjct: 365 APQPAKPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPP------PVPPRPVA 418
Query: 261 TTTGTLPANTPTMTTGQ 277
P + P +T
Sbjct: 419 PPVPHTPESAPKLTRAA 435
>gnl|CDD|238910 cd01935, Ntn_CGH_like, Choloylglycine hydrolase (CGH)_like. This
family of choloylglycine hydrolase-like proteins
includes conjugated bile acid hydrolase (CBAH),
penicillin V acylase (PVA), acid ceramidase (AC), and
N-acylethanolamine-hydrolyzing acid amidase (NAAA) which
cleave non-peptide carbon-nitrogen bonds in bile salt
constituents. These enzymes have an N-terminal
nucleophilic cysteine, as do other members of the Ntn
hydrolase family to which they belong. This
nucleophilic cysteine is exposed by post-translational
prossessing of the precursor protein.
Length = 229
Score = 27.3 bits (61), Expect = 9.4
Identities = 12/57 (21%), Positives = 20/57 (35%)
Query: 69 ILDNPLVQGMLNDPNSMRNLIMSNPQMQDLIERNPEINHMLNNPELLRQTMEMARNP 125
I DNP M N P +L ++ L + + + + L +E P
Sbjct: 162 IYDNPWFGVMTNHPTFDWHLPRRFVRVAYLKNTAQKNKETVEDVKNLFHILESVPIP 218
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
0.316 0.133 0.397
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,240,295
Number of extensions: 1424716
Number of successful extensions: 1626
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1610
Number of HSP's successfully gapped: 60
Length of query: 294
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 198
Effective length of database: 6,679,618
Effective search space: 1322564364
Effective search space used: 1322564364
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: 59 (26.5 bits)