RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy145
(203 letters)
>gnl|CDD|227539 COG5214, POL12, DNA polymerase alpha-primase complex,
polymerase-associated subunit B [DNA replication,
recombination, and repair].
Length = 581
Score = 58.5 bits (141), Expect = 3e-10
Identities = 27/83 (32%), Positives = 39/83 (46%), Gaps = 3/83 (3%)
Query: 66 TEITAIGRIVCDTS--DGKLNAASVLLEGDEVTSGGRSISLKLPE-TGVAVFPGQIVAAR 122
+ +GRIV ++ KLN+ SV LE G + L L +VFPGQIVA +
Sbjct: 203 SSFYTVGRIVNPSTNFGHKLNSESVFLESSRDGGNGVRVRLNLAHLQRYSVFPGQIVAVK 262
Query: 123 GSNPSRNQFIATKIYSDASLPLS 145
G N +F I +P++
Sbjct: 263 GKNTDGGKFTVEAILPIPVVPIN 285
>gnl|CDD|151040 pfam10474, DUF2451, Protein of unknown function C-terminus
(DUF2451). This protein is found in eukaryotes but its
function is not known. The C-terminal part of some
members is DUF2450.
Length = 234
Score = 30.4 bits (69), Expect = 0.52
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 5 MSNQMKSVLDKIRPEWESNPQPSAYRIPWISNLSQFN 41
+ N M +V I+ E Q ++Y QF
Sbjct: 72 LLNSMANVKWDIK---EVPSQHNSYVDLLNREFQQFT 105
>gnl|CDD|173585 PTZ00394, PTZ00394, glucosamine-fructose-6-phosphate
aminotransferase; Provisional.
Length = 670
Score = 29.8 bits (67), Expect = 1.0
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 6/66 (9%)
Query: 62 FGDT-TEITAIGRIVCDTSDGKLNAASVLLEGDEVTSGGRSISLKLPETGVAVFPGQIVA 120
DT TE+ ++ T G N A + LE + G ++ +K FPGQ+ A
Sbjct: 153 SSDTDTEVISVLSEYLYTRKGIHNFADLALEVSRMVEGSYALLVK-----SVYFPGQLAA 207
Query: 121 ARGSNP 126
+R +P
Sbjct: 208 SRKGSP 213
>gnl|CDD|153356 cd07672, F-BAR_PSTPIP2, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Proline-Serine-Threonine
Phosphatase-Interacting Protein 2. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Proline-Serine-Threonine
Phosphatase-Interacting Protein 2 (PSTPIP2), also known
as Macrophage Actin-associated tYrosine Phosphorylated
protein (MAYP), is mostly expressed in hematopoietic
cells but is also expressed in the brain. It is involved
in regulating cell adhesion and motility. Mutations in
the gene encoding murine PSTPIP2 can cause
autoinflammatory disorders such as chronic multifocal
osteomyelitis and macrophage autoinflammatory disease.
PSTPIP2 contains an N-terminal F-BAR domain and lacks
the PEST motifs and SH3 domain that are found in
PSTPIP1. F-BAR domains form banana-shaped dimers with a
positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 240
Score = 28.0 bits (62), Expect = 2.9
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 2 SDRMSNQMKSVLDKIRPEWES 22
+DR+ Q SVLDKIR +W+
Sbjct: 173 ADRLYMQNISVLDKIREDWQK 193
>gnl|CDD|188173 TIGR01852, lipid_A_lpxA,
acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine
O-acyltransferase. This model describes LpxA, an enzyme
for the biosynthesis of lipid A, a component
oflipopolysaccharide (LPS) in the outer membrane outer
leaflet of most Gram-negative bacteria. Some differences
are found between lipid A of different species, but this
protein represents the first step (from
UDP-N-acetyl-D-glucosamine) and appears to be conserved
in function. Proteins from this family contain many
copies of the bacterial transferase hexapeptide repeat
(pfam00132) [Cell envelope, Biosynthesis and degradation
of surface polysaccharides and lipopolysaccharides].
Length = 254
Score = 28.0 bits (63), Expect = 3.2
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 160 LRVSYEKGLPLADYLVNVFEKSYNSAFITTVADFHRAGSSGF 201
R + GLPL + V E+ ++ + + DF R G
Sbjct: 212 YRTLFRSGLPLREAAQQVAEEYEDNPEVKEILDFIRESKRGI 253
>gnl|CDD|130865 TIGR01806, CM_mono2, chorismate mutase, putative. This model
represents a clade of probable chorismate mutases from
alpha, beta and gamma proteobacteria as well as
Mycobacterium tuberculosis and a clade of nematodes.
Although the most likely function for the enzymes
represented by this model is as a chorismate mutase, in
no species are these enzymes the sole chorismate mutase
in the genome. Also, in no case are these enzymes
located in a region of the genome proximal to any other
enzymes involved in chorismate pathways. Although the
Pantoea enzyme has been shown to complement a CM-free
mutant of E. coli , this was also shown to be the case
with isochorismate-pyruvate lyase which only has a
secondary (non-physiologically relevant) chorismate
mutase activity. This enzyme is believed to be a
homodimer and be localized to the periplasm [Amino acid
biosynthesis, Aromatic amino acid family].
Length = 114
Score = 26.6 bits (59), Expect = 4.5
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 3/67 (4%)
Query: 93 DEVTSGGRSISLKLPETGVAVFPGQIVAARG-SNPSRNQFIATKIYSDASLPLSETRPAL 151
D + + +S L P+ F QI A + + ++ L++TR A+
Sbjct: 45 DSLRAQAQSAGLD-PDYVTRFFQAQINANKAIQYRLVSDWLNPPSPPPQVPDLTDTRSAI 103
Query: 152 DQ-NTEM 157
DQ NTEM
Sbjct: 104 DQLNTEM 110
>gnl|CDD|235123 PRK03381, PRK03381, PII uridylyl-transferase; Provisional.
Length = 774
Score = 27.6 bits (62), Expect = 4.6
Identities = 22/112 (19%), Positives = 39/112 (34%), Gaps = 29/112 (25%)
Query: 68 ITAIGRIVCDTSDGKLNAASVLLEGDEVTSGGRSISLKLPETGVAVFPGQIVAARGSNPS 127
++ R + D A+ L +++ R + + GV G++V AR + P+
Sbjct: 268 LSDAARTISYAVDVGWRTAANALPRRGLSALRRRPVRRPLDEGVVEHAGEVVLARDARPA 327
Query: 128 RNQFIATKIYSDASLPLSETRPALDQNTEMYKLRV---SYEKGLPLADYLVN 176
R D L LRV + GLP+A ++
Sbjct: 328 R----------DPGLV----------------LRVAAAAATTGLPIAAATLS 353
>gnl|CDD|183434 PRK12318, PRK12318, methionine aminopeptidase; Provisional.
Length = 291
Score = 27.1 bits (60), Expect = 6.0
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 53 DITLLVPFLFGDTTEITAIG------RIVCDTSDGKLNAASVLLE 91
D++ +V +GD + + IG + VC S LNAA +L+
Sbjct: 135 DVSCIVDGYYGDCSRMVMIGEVSEIKKKVCQASLECLNAAIAILK 179
>gnl|CDD|235394 PRK05297, PRK05297, phosphoribosylformylglycinamidine synthase;
Provisional.
Length = 1290
Score = 27.5 bits (62), Expect = 6.1
Identities = 16/42 (38%), Positives = 18/42 (42%), Gaps = 14/42 (33%)
Query: 144 LSETRPALDQ-NTEMYKLRVSYEKGLPLA----DYLVNVFEK 180
L R AL+ N E+ GL LA DYLV F K
Sbjct: 160 LGGGRAALEAANVEL---------GLALAEDEIDYLVEAFTK 192
>gnl|CDD|238496 cd01014, nicotinamidase_related, Nicotinamidase_ related
amidohydrolases. Cysteine hydrolases of unknown
function that share the catalytic triad with other
amidohydrolases, like nicotinamidase, which converts
nicotinamide to nicotinic acid and ammonia.
Length = 155
Score = 26.4 bits (59), Expect = 8.2
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 5/41 (12%)
Query: 149 PALDQNTEMYKLRVSYEKGLPLADYLVNVFEKSYNSAFITT 189
+ +E +++ + + PL V EK+ +AF T
Sbjct: 53 GSFAPGSEGWEI---HPELAPLEGETV--IEKTVPNAFYGT 88
>gnl|CDD|185052 PRK15097, PRK15097, cytochrome d terminal oxidase subunit 1;
Provisional.
Length = 522
Score = 26.7 bits (59), Expect = 9.7
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 5 MSNQMKSVLDKIRPEWESNPQPSAYRIPWISN 36
M + K+ L I EWE+ P P+A+ + I +
Sbjct: 245 MGDVQKTKLAAIEAEWETQPAPAAFTLFGIPD 276
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 0.380
Gapped
Lambda K H
0.267 0.0721 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,181,865
Number of extensions: 931351
Number of successful extensions: 809
Number of sequences better than 10.0: 1
Number of HSP's gapped: 808
Number of HSP's successfully gapped: 20
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
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: 57 (25.8 bits)