RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16427
(146 letters)
>gnl|CDD|237983 cd00016, alkPPc, Alkaline phosphatase homologues; alkaline
phosphatases are non-specific phosphomonoesterases that
catalyze the hydrolysis reaction via a phosphoseryl
intermediate to produce inorganic phosphate and the
corresponding alcohol, optimally at high pH. Alkaline
phosphatase exists as a dimer, each monomer binding 2
zinc atoms and one magnesium atom, which are essential
for enzymatic activity.
Length = 384
Score = 73.5 bits (181), Expect = 3e-16
Identities = 29/56 (51%), Positives = 39/56 (69%), Gaps = 2/56 (3%)
Query: 46 EDRAKNIILMVGDGMGLSTLTASRILKGQRMGIHGEEYHLAWDKFPAVALAKQFSS 101
+ +AKN+IL +GDGMG+ST+TA+RI KGQ G EE L +D FP L+K +S
Sbjct: 3 KKKAKNVILFIGDGMGVSTITAARIYKGQENG--AEEGKLLFDDFPLTGLSKTYSV 56
>gnl|CDD|214515 smart00098, alkPPc, Alkaline phosphatase homologues.
Length = 419
Score = 66.7 bits (163), Expect = 8e-14
Identities = 31/52 (59%), Positives = 41/52 (78%)
Query: 50 KNIILMVGDGMGLSTLTASRILKGQRMGIHGEEYHLAWDKFPAVALAKQFSS 101
KN+IL +GDGMG+ST+TA+RILKGQ G GEE LA+D+FP AL+K ++
Sbjct: 1 KNVILFIGDGMGVSTITAARILKGQAGGKLGEETLLAFDQFPTGALSKTYNP 52
>gnl|CDD|201110 pfam00245, Alk_phosphatase, Alkaline phosphatase.
Length = 421
Score = 66.3 bits (162), Expect = 1e-13
Identities = 31/53 (58%), Positives = 40/53 (75%), Gaps = 1/53 (1%)
Query: 49 AKNIILMVGDGMGLSTLTASRILKGQRMGIHGEEYHLAWDKFPAVALAKQFSS 101
AKN+IL +GDGMG+ST+TA+RILKGQ G G E LA D+FP V L+K ++
Sbjct: 1 AKNVILFIGDGMGVSTITAARILKGQAKGKLGPET-LAMDRFPLVGLSKTYNV 52
>gnl|CDD|224699 COG1785, PhoA, Alkaline phosphatase [Inorganic ion transport and
metabolism].
Length = 482
Score = 52.8 bits (127), Expect = 7e-09
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 44 LPEDRAKNIILMVGDGMGLSTLTASRILKGQRMGIHGEEYHLAWD 88
+AKN+IL++GDGMG ST+TA+R KG G + D
Sbjct: 54 ASAGKAKNVILLIGDGMGPSTVTAARSYKGGPNG-PFKGIDTLPD 97
>gnl|CDD|236706 PRK10518, PRK10518, alkaline phosphatase; Provisional.
Length = 476
Score = 38.9 bits (91), Expect = 4e-04
Identities = 14/22 (63%), Positives = 19/22 (86%)
Query: 48 RAKNIILMVGDGMGLSTLTASR 69
AKN+IL++GDGMG S +TA+R
Sbjct: 68 PAKNVILLIGDGMGDSEITAAR 89
>gnl|CDD|226003 COG3472, COG3472, Uncharacterized conserved protein [Function
unknown].
Length = 342
Score = 29.4 bits (66), Expect = 0.63
Identities = 10/43 (23%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 19 LDKEFWYKDAQEGIRRRLALFGESHLPEDRAKNIILMVGDGMG 61
LD+ EG+ E+RA+N++ + D +G
Sbjct: 276 LDEMLIPHALPEGLWDND----YDTFFEERAENVLSEIMDAIG 314
>gnl|CDD|182460 PRK10437, PRK10437, carbonic anhydrase; Provisional.
Length = 220
Score = 28.7 bits (64), Expect = 0.97
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 15/68 (22%)
Query: 21 KEFWYKDAQEGIRRRLALFGESHLPEDRAK-----NIILMVGDGMGLSTLTASRILKGQR 75
++ W+K + +L GE E R N++ V + +G ST+ S +GQ+
Sbjct: 124 RDIWFKHS--------SLLGEMP-QERRLDTLCELNVMEQVYN-LGHSTIMQSAWKRGQK 173
Query: 76 MGIHGEEY 83
+ IHG Y
Sbjct: 174 VTIHGWAY 181
>gnl|CDD|224837 COG1926, COG1926, Predicted phosphoribosyltransferases [General
function prediction only].
Length = 220
Score = 27.7 bits (62), Expect = 2.4
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 33 RRRLALFGESHLPEDRAKNIILMVGDG--MGLSTLTASRILK 72
RRR A G +P + + +IL V DG G + A R L+
Sbjct: 108 RRREAYRGGRPVPSLKGRTVIL-VDDGIATGATMKAAVRALR 148
>gnl|CDD|233422 TIGR01460, HAD-SF-IIA, Haloacid Dehalogenase Superfamily Class
(subfamily) IIA. This model represents one structural
subclass of the Haloacid Dehalogenase (HAD) superfamily
of aspartate-nucleophile hydrolases. The superfamily is
defined by the presence of three short catalytic motifs.
The classes are defined based on the location and the
observed or predicted fold of a so-called "capping
domain", or the absence of such a domain. Class I
consists of sequences in which the capping domain is
found in between the first and second catalytic motifs.
Class II consists of sequences in which the capping
domain is found between the second and third motifs.
Class III sequences have no capping domain in iether of
these positions. The Class IIA capping domain is
predicted by PSI-PRED to consist of a mixed alpha-beta
fold with the basic pattern:
Helix-Helix-Helix-Sheet-Helix-Loop-Sheet-Helix-Sheet-
Helix. Presently, this subfamily encompasses a single
equivalog model (TIGR01452) for the eukaryotic
phosphoglycolate phosphatase, as well as four
hypothetical equivalogs covering closely related
sequences (TIGR01456 and TIGR01458 in eukaryotes,
TIGR01457 in gram positive bacteria and TIGR01459 in
gram negative bacteria). The Escherishia coli NagD gene
and the Bacillus subtilus AraL gene are members of this
subfamily but are not members of the any of the
presently defined equivalogs within it. NagD is part of
the NAG operon responsible for N-acetylglucosamine
metabolism. The function of this gene is unknown. Genes
from several organisms have been annotated as NagD, or
NagD-like. However, without data on the presence of
other members of this pathway, (such as in the case of
Yersinia pestis) these assignments should not be given
great weight. The AraL gene is similar: it is part of
the L-arabinose operon, but the function is unknown. A
gene from Halobacterium has been annotated as AraL, but
no other Ara operon genes have been annotated. Many of
the genes in this subfamily have been annotated as
"pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These
all refer to the same activity versus a common lab test
compound used to determine phosphatase activity. There
is no evidence that this activity is physiologically
relevant [Unknown function, Enzymes of unknown
specificity].
Length = 236
Score = 27.7 bits (62), Expect = 2.4
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 6/37 (16%)
Query: 42 SHLPEDRAKNIILMVGDGMGLSTLTASRILKGQRMGI 78
+L + R + +MVGD + + IL + G
Sbjct: 198 LNLLQARPERRDVMVGDNL------RTDILGAKNAGF 228
>gnl|CDD|99800 cd06203, methionine_synthase_red, Human methionine synthase
reductase (MSR) restores methionine sythase which is
responsible for the regeneration of methionine from
homocysteine, as well as the coversion of
methyltetrahydrofolate to tetrahydrofolate. In MSR,
electrons are transferred from NADPH to FAD to FMN to
cob(II)alamin. MSR resembles proteins of the cytochrome
p450 family including nitric oxide synthase, the alpha
subunit of sulfite reductase, but contains an extended
hinge region. NADPH cytochrome p450 reductase (CYPOR)
serves as an electron donor in several oxygenase systems
and is a component of nitric oxide synthases and
methionine synthase reductases. CYPOR transfers two
electrons from NADPH to the heme of cytochrome p450 via
FAD and FMN. CYPORs resemble ferredoxin reductase (FNR)
but have a connecting subdomain inserted within the
flavin binding region, which helps orient the FMN
binding doamin with the FNR module. Ferredoxin-NADP+
(oxido)reductase is an FAD-containing enzyme that
catalyzes the reversible electron transfer between
NADP(H) and electron carrier proteins such as ferredoxin
and flavodoxin. Isoforms of these flavoproteins (i.e.
having a non-covalently bound FAD as a prosthetic group)
are present in chloroplasts, mitochondria, and bacteria
in which they participate in a wide variety of redox
metabolic pathways. The C-terminal domain contains most
of the NADP(H) binding residues and the N-terminal
domain interacts non-covalently with the isoalloxazine
rings of the flavin molecule which lies largely in a
large gap betweed the two domains. Ferredoxin-NADP+
reductase first accepts one electron from reduced
ferredoxin to form a flavin semiquinone intermediate.
The enzyme then accepts a second electron to form FADH2
which then transfers two electrons and a proton to NADP+
to form NADPH.
Length = 398
Score = 27.7 bits (62), Expect = 2.8
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 43 HLPEDRAKNIILMVGDGMGLS 63
LP D + I+MVG G G++
Sbjct: 234 RLPPDDLRRPIIMVGPGTGVA 254
>gnl|CDD|173171 PRK14708, PRK14708, flagellin; Provisional.
Length = 888
Score = 27.6 bits (61), Expect = 3.1
Identities = 14/33 (42%), Positives = 15/33 (45%)
Query: 45 PEDRAKNIILMVGDGMGLSTLTASRILKGQRMG 77
P D KN+ L G G TLT R G MG
Sbjct: 450 PTDLLKNLGLTTSTGSGPLTLTKQRTTSGTTMG 482
>gnl|CDD|119382 cd06522, GH25_AtlA-like, AtlA is an autolysin found in
Gram-positive lactic acid bacteria that degrades
bacterial cell walls by catalyzing the hydrolysis of
1,4-beta-linkages between N-acetylmuramic acid and
N-acetyl-D-glucosamine residues. This family includes
the AtlA and Aml autolysins from Streptococcus mutans
which have a C-terminal glycosyl hydrolase family 25
(GH25) catalytic domain as well as six tandem
N-terminal repeats of the GBS (group B Streptococcus)
Bsp-like peptidoglycan-binding domain. Other members
of this family have one or more C-terminal
peptidoglycan-binding domain(s) (SH3 or LysM) in
addition to the GH25 domain.
Length = 192
Score = 26.9 bits (60), Expect = 3.3
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 67 ASRILKGQRMGIHGEEYHLAWDKFPAVALA 96
AS+I + G+ YH A A A A
Sbjct: 45 ASQIANAKAAGLKVSAYHYAHYTSAADAQA 74
>gnl|CDD|99799 cd06202, Nitric_oxide_synthase, The ferredoxin-reductase (FNR) like
C-terminal domain of the nitric oxide synthase (NOS)
fuses with a heme-containing N-terminal oxidase domain.
The reductase portion is similar in structure to NADPH
dependent cytochrome-450 reductase (CYPOR), having an
inserted connecting sub-domain within the FAD binding
portion of FNR. NOS differs from CYPOR in a requirement
for the cofactor tetrahydrobiopterin and unlike most
CYPOR is dimeric. Nitric oxide synthase produces nitric
oxide in the conversion of L-arginine to L-citruline.
NOS has been implicated in a variety of processes
including cytotoxicity, anti-inflamation,
neurotransmission, and vascular smooth muscle
relaxation.
Length = 406
Score = 26.9 bits (60), Expect = 4.3
Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 43 HLPEDRAKNIILMVGDGMGL 62
HLPED + +I MVG G G+
Sbjct: 240 HLPEDPSVPVI-MVGPGTGI 258
>gnl|CDD|233021 TIGR00555, panK_eukar, pantothenate kinase,
eukaryotic/staphyloccocal type. This model describes a
eukaryotic form of pantothenate kinase, characterized
from the fungus Aspergillus nidulans and with similar
forms known in several other eukaryotes. It also
includes forms from several Gram-positive bacteria
suggested to have originated from the eukaryotic form by
lateral transfer. It differs in a number of biochemical
properties (such as inhibition by acetyl-CoA) from most
bacterial CoaA and lacks sequence similarity. This
enzyme is the key regulatory step in the biosynthesis of
coenzyme A (CoA) [Biosynthesis of cofactors, prosthetic
groups, and carriers, Pantothenate and coenzyme A].
Length = 296
Score = 26.6 bits (59), Expect = 4.7
Identities = 8/36 (22%), Positives = 17/36 (47%)
Query: 40 GESHLPEDRAKNIILMVGDGMGLSTLTASRILKGQR 75
+S PED A +++ ++G+ +G + R
Sbjct: 215 DQSFSPEDIAASLLGLIGNNIGQIAYLCALRYNIDR 250
>gnl|CDD|224459 COG1542, COG1542, Uncharacterized conserved protein [Function
unknown].
Length = 593
Score = 26.8 bits (59), Expect = 4.9
Identities = 7/39 (17%), Positives = 17/39 (43%)
Query: 75 RMGIHGEEYHLAWDKFPAVALAKQFSSGGIILCQLGQRM 113
+G EE + K + ++ + G+ L + G+ +
Sbjct: 451 HVGGDEEEVIKSLGKLESKGFVEELPNKGVKLTEAGELV 489
>gnl|CDD|177852 PLN02201, PLN02201, probable pectinesterase/pectinesterase
inhibitor.
Length = 520
Score = 26.8 bits (59), Expect = 5.6
Identities = 8/17 (47%), Positives = 13/17 (76%)
Query: 53 ILMVGDGMGLSTLTASR 69
I+MVGDG+ + +T +R
Sbjct: 258 IMMVGDGIDATVITGNR 274
>gnl|CDD|204301 pfam09735, Nckap1, Membrane-associated apoptosis protein.
Expression of this protein was found to be markedly
reduced in patients with Alzheimer's disease. It is
involved in the regulation of actin polymerisation in
the brain as part of a WAVE2 signalling complex.
Length = 1118
Score = 26.6 bits (59), Expect = 6.4
Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 10/62 (16%)
Query: 43 HLPEDRAKNIILMVGD---GMGL-----STLTASRILKGQRMGIHGEEYHLAWDKFPAVA 94
H+PE K +IL + + G+ L + L Q+ E+Y + VA
Sbjct: 940 HVPEVTDKKVILRIFEMASAAGVPCDVDPALVNA--LLAQKGENSEEDYKNSCLLLVFVA 997
Query: 95 LA 96
++
Sbjct: 998 VS 999
>gnl|CDD|215383 PLN02713, PLN02713, Probable pectinesterase/pectinesterase
inhibitor.
Length = 566
Score = 26.3 bits (58), Expect = 8.7
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 50 KNIILMVGDGMGLSTLTASR 69
K ++M+GDG+ + +T +R
Sbjct: 302 KKYLMMIGDGINQTVITGNR 321
>gnl|CDD|163426 TIGR03714, secA2, accessory Sec system translocase SecA2. Members
of this protein family are homologous to SecA and part
of the accessory Sec system. This system, including both
five core proteins for export and a variable number of
proteins for glycosylation, operates in certain
Gram-positive pathogens for the maturation and delivery
of serine-rich glycoproteins such as the cell surface
glycoprotein GspB in Streptococcus gordonii [Protein
fate, Protein and peptide secretion and trafficking].
Length = 762
Score = 26.2 bits (58), Expect = 8.7
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 2 IVPSYVVTLTSQ--YHHSFLDKEFWYKDAQEGIRRRLALFGESHL 44
I ++V TL Y KE W D +GI + F +L
Sbjct: 231 IADTFVRTLKEDVDYIFKKDKKEVWLTD--KGIEKAEQYFKIDNL 273
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
0.323 0.137 0.421
Gapped
Lambda K H
0.267 0.0670 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,696,134
Number of extensions: 706226
Number of successful extensions: 596
Number of sequences better than 10.0: 1
Number of HSP's gapped: 594
Number of HSP's successfully gapped: 35
Length of query: 146
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 58
Effective length of database: 7,034,450
Effective search space: 407998100
Effective search space used: 407998100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (24.7 bits)