RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy895
(269 letters)
>gnl|CDD|224154 COG1233, COG1233, Phytoene dehydrogenase and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 487
Score = 121 bits (304), Expect = 2e-31
Identities = 57/167 (34%), Positives = 77/167 (46%), Gaps = 17/167 (10%)
Query: 107 GRGHMCFCESDR----PMIEMVLPSSLDNTLSPPGHHVCLLFTQFTPYKLAGDRDWTEED 162
R + DR P + + +PS D +L+P G H F +E
Sbjct: 329 TREQIEEAFDDRAGRPPPLYVSIPSLTDPSLAPEGKHST-----FAQLVPVPSLGDYDEL 383
Query: 163 KANYATNVFSSIEQYCPGFTQDIVGYEILTPPDLEKEFGLTGGNIFHGALSLNQLLFNRP 222
K + A + ++E+ PG IV E+LTP DLE+ GL GG+IF GA +L+QL RP
Sbjct: 384 KESLADAI-DALEELAPGLRDRIVAREVLTPLDLERYLGLPGGDIFGGAHTLDQLGPFRP 442
Query: 223 LPIQGPSSPFTLIPHLLLCGSGAHPGGGVCGAPGYIAAQMVNRLMRK 269
P T I L L G+ HPGGGV G PG AA + +
Sbjct: 443 PP------KSTPIKGLYLVGASTHPGGGVPGVPGS-AAAVALLIDLD 482
>gnl|CDD|233988 TIGR02734, crtI_fam, phytoene desaturase. Phytoene is converted to
lycopene by desaturation at four (two symmetrical pairs
of) sites. This is achieved by two enzymes (crtP and
crtQ) in cyanobacteria (Gloeobacter being an exception)
and plants, but by a single enzyme in most other
bacteria and in fungi. This single enzyme is called the
bacterial-type phytoene desaturase, or CrtI. Most
members of this family, part of the larger Pfam family
pfam01593, which also contains amino oxidases, are CrtI
itself; it is likely that all members act on either
phytoene or on related compounds such as
dehydrosqualene, for carotenoid biosynthesis
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 502
Score = 57.3 bits (139), Expect = 2e-09
Identities = 42/146 (28%), Positives = 62/146 (42%), Gaps = 15/146 (10%)
Query: 126 PSSLDNTLSPPGHHVCLLFTQF-TPYKLAGDRDWTEEDKANYATNVFSSIEQ-YCPGFTQ 183
P+ D +L+PPG L+ P+ D DW+ E Y + + +E+ PG
Sbjct: 356 PTVTDPSLAPPGCE--NLYVLAPVPHLGTADVDWSVE-GPRYRDRILAYLEERAIPGLRD 412
Query: 184 DIVGYEILTPPDLEKEFGLTGGNIFHGALSLNQLLFNRPLPIQGPSSPFTLIPHLLLCGS 243
IV TP D + G+ F +L Q + R P + I +L L G+
Sbjct: 413 RIVVERTFTPADFRDRYNAWLGSAFSLEHTLTQSAWFR------PHNRDRKIDNLYLVGA 466
Query: 244 GAHPGGGVCGAPG-YIAAQMVNRLMR 268
G HPG GV PG +A+ +LM
Sbjct: 467 GTHPGAGV---PGVLGSAKATAKLML 489
>gnl|CDD|131777 TIGR02730, carot_isom, carotene isomerase. Members of this family,
including sll0033 (crtH) of Synechocystis sp. PCC 6803,
catalyze a cis-trans isomerization of carotenes to the
all-trans lycopene, a reaction that can also occur
non-enzymatically in light through photoisomerization
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 493
Score = 38.2 bits (89), Expect = 0.003
Identities = 37/134 (27%), Positives = 52/134 (38%), Gaps = 20/134 (14%)
Query: 125 LPSSLDNTLSPPGHHVCLLFTQFTPYKLAGDRDWT-------EEDKANYATNVFSSIEQY 177
+P+ LD +L+P GHH+ FTP + DW E K A + +E+
Sbjct: 354 IPTLLDPSLAPEGHHI---IHTFTPSSM---EDWQGLSPKDYEAKKEADAERIIDRLEKI 407
Query: 178 CPGFTQDIVGYEILTPPDLEKEFGLTGGNIFHGALSLNQLLFNRPLPIQGPSSPFTLIPH 237
PG I E+ TP + G G +G + L P+P T IP
Sbjct: 408 FPGLDSAIDYKEVGTPRTHRRFLGRDSGT--YGPIPRRTLPGLLPMPFNR-----TAIPG 460
Query: 238 LLLCGSGAHPGGGV 251
L G PG G+
Sbjct: 461 LYCVGDSCFPGQGL 474
>gnl|CDD|233987 TIGR02733, desat_CrtD, C-3',4' desaturase CrtD. Members of this
family are slr1293, a carotenoid biosynthesis protein
which was shown to be the C-3',4' desaturase (CrtD) of
myxoxanthophyll biosynthesis in Synechocystis sp. strain
PCC 6803, and close homologs (presumed to be
functionally equivalent) from other cyanobacteria, where
myxoxanthophyll biosynthesis is either known or
expected. This enzyme can act on neurosporene and so
presumably catalyzes the first step that is committed to
myxoxanthophyll [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 492
Score = 36.2 bits (84), Expect = 0.014
Identities = 34/127 (26%), Positives = 48/127 (37%), Gaps = 14/127 (11%)
Query: 143 LFTQFTPYKLAGDRDWTEEDKANYATNVFSSIEQYCPGFTQDIVGYEILTPPDLEKEFGL 202
FT + + D+T + K Y + + Y ++ V E+ TP E+ G
Sbjct: 374 SFTDTNDWSSLDEEDYTAK-KKQYTQTIIERLGHYFDLLEENWVHVELATPRTFERWTGR 432
Query: 203 TGGNIFHGALSLNQLLFNRPLPIQGPS--SPFTLIPHLLLCGSGAHPGGGVCGAPGYIAA 260
G + G L F GP S T + L LCG HPG G G +A
Sbjct: 433 PQGIV--GGLGQRPSTF-------GPFGLSSRTPVKGLWLCGDSIHPGEGTAGVS--YSA 481
Query: 261 QMVNRLM 267
MV R +
Sbjct: 482 LMVVRQI 488
>gnl|CDD|188922 cd09523, SAM_TAL, SAM domain of TAL subfamily. SAM (sterile alpha
motif) domain of TAL (Tsg101-associated ligase)
proteins, also known as LRSAM1 (Leucine-rich repeat and
sterile alpha motif-containing) proteins, is a putative
protein-protein interaction domain. Proteins of this
subfamily participate in the regulation of retrovirus
budding and receptor endocytosis. They show E3 ubiquitin
ligase activity. Human TAL protein interacts with Tsg101
and TAL's C-terminal ring finger domain is essential for
the multiple monoubiquitylation of Tsg101.
Length = 65
Score = 28.4 bits (64), Expect = 0.63
Identities = 14/38 (36%), Positives = 17/38 (44%), Gaps = 7/38 (18%)
Query: 172 SSIEQYCPGFTQDIVGYEIL---TPPDLEK----EFGL 202
S E Y P F + + E L T DL+K E GL
Sbjct: 15 LSAEHYLPVFARHRITMETLSTMTDEDLKKIGIHEIGL 52
>gnl|CDD|235159 PRK03784, PRK03784, vtamin B12-transporter permease; Provisional.
Length = 331
Score = 30.3 bits (69), Expect = 0.99
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 235 IPHLL-LCGSGAH----PGGGVCGAPGYIAAQMVNRLM 267
IPH+L LCG H PG + GA + A +V RL
Sbjct: 263 IPHILRLCGLTDHRVLLPGCALAGASLLLLADIVARLA 300
>gnl|CDD|226623 COG4139, BtuC, ABC-type cobalamin transport system, permease
component [Coenzyme metabolism].
Length = 326
Score = 29.0 bits (65), Expect = 2.9
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 234 LIPHLL-LCGSGAH----PGGGVCGAPGYIAAQMVNRL 266
+IPH+L LCG H PG + GA + A +V RL
Sbjct: 259 VIPHILRLCGLTDHRLLLPGCALAGASALLLADIVARL 296
>gnl|CDD|213589 TIGR01153, psbC, photosystem II 44 kDa subunit reaction center
protein (also called P6 protein, CP43), bacterial and
chloroplast. This model describes the Photosystem II,
44kDa subunit (also called P6 protein, CP43) in
bacterial and its equivalents in chloroplast of algae
and higher plants. Photosystem II is in many ways
functionally equivalent to bacterial reaction center. At
the core of Photosystem II are several light harvesting
cofactors including plastoquinones, pheophytins,
phyloquinones etc. These cofactors are intimately
associated with the polypeptides, which principally
including subunits 44 kDa protein,DI, DII, Cyt.b, Cyt.f,
iron-sulphur protein and others. Functinally 44 kDa
subunit is imlicated in chlorophyll binding. Together
they participate in the electron transfer reactions that
lead to the net production of the reducting equivalents
in the form of NADPH, which are used for reduction of
CO2 to carbohydrates(C6H1206). Phosystem II operates
during oxygenic photosynthesis and principal electron
donor is H2O. Although no high resolution X-ray
structural data is presently available, recently a 3D
structure of the supercomplex has been described by
cryo-electron microscopy. Besides a huge body of
literature exits that describes function using a variety
of biochemical and biophysical techniques [Energy
metabolism, Electron transport, Energy metabolism,
Photosynthesis].
Length = 432
Score = 28.6 bits (64), Expect = 3.4
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 15/61 (24%)
Query: 202 LTGGNIFH--------GALSL---NQLLFNRPLPIQGPSSPFTLIPHLLLCGSGAHPGGG 250
L G ++ H GA++L F++P+ QG L+PH+ G G PGG
Sbjct: 17 LLGAHVAHAGLIVFWAGAMTLFEVAHFTFDKPMYEQG----LILMPHVATLGWGVGPGGE 72
Query: 251 V 251
V
Sbjct: 73 V 73
>gnl|CDD|216795 pfam01933, UPF0052, Uncharacterized protein family UPF0052.
Length = 291
Score = 28.4 bits (64), Expect = 3.6
Identities = 8/15 (53%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 227 GPSSPFT-LIPHLLL 240
GP S FT + P+LL+
Sbjct: 179 GPGSLFTSIGPNLLV 193
>gnl|CDD|223468 COG0391, COG0391, Uncharacterized conserved protein [Function
unknown].
Length = 323
Score = 28.4 bits (64), Expect = 3.7
Identities = 9/15 (60%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 227 GPSSPFT-LIPHLLL 240
GP S FT ++P LLL
Sbjct: 196 GPGSLFTSILPILLL 210
>gnl|CDD|206651 cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1). This group
represents Arabidoposis protein AIG1 (avrRpt2-induced
gene 1) that appears to be involved in plant resistance
to bacteria. The Arabidopsis disease resistance gene
RPS2 is involved in recognition of bacterial pathogens
carrying the avirulence gene avrRpt2. AIG1 exhibits
RPS2- and avrRpt1-dependent induction early after
infection with Pseudomonas syringae carrying avrRpt2.
This subfamily also includes IAN-4 protein, which has
GTP-binding activity and shares sequence homology with a
novel family of putative GTP-binding proteins: the
immuno-associated nucleotide (IAN) family. The
evolutionary conservation of the IAN family provides a
unique example of a plant pathogen response gene
conserved in animals. The IAN/IMAP subfamily has been
proposed to regulate apoptosis in vertebrates and
angiosperm plants, particularly in relation to cancer,
diabetes, and infections. The human IAN genes were
renamed GIMAP (GTPase of the immunity associated
proteins).
Length = 201
Score = 27.9 bits (63), Expect = 4.3
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 8/33 (24%)
Query: 132 TLSPPGHHVCLLFTQFTPYKLAGDRDWTEEDKA 164
+LS PG H LL + TEE++
Sbjct: 78 SLSAPGPHAFLLVVPLGRF--------TEEEEQ 102
>gnl|CDD|205235 pfam13054, DUF3915, Protein of unknown function (DUF3915). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 120 amino acids in length.
Length = 116
Score = 26.8 bits (59), Expect = 5.8
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 3/40 (7%)
Query: 147 FTPYKLAGDRDWTEEDKANYATNVFSSIEQYCPGFTQDIV 186
F+ + D+D ++DK N N F+ I + CP +DIV
Sbjct: 78 FSALAMGDDKDNKDDDKNNQNRNKFTGILRVCP---EDIV 114
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 0.141 0.452
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,736,105
Number of extensions: 1264734
Number of successful extensions: 946
Number of sequences better than 10.0: 1
Number of HSP's gapped: 941
Number of HSP's successfully gapped: 13
Length of query: 269
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 174
Effective length of database: 6,723,972
Effective search space: 1169971128
Effective search space used: 1169971128
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: 58 (26.2 bits)