RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1773
(359 letters)
>gnl|CDD|201956 pfam01756, ACOX, Acyl-CoA oxidase. This is a family of Acyl-CoA
oxidases EC:1.3.3.6. Acyl-coA oxidase converts acyl-CoA
into trans-2- enoyl-CoA.
Length = 186
Score = 49.1 bits (118), Expect = 4e-07
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 1 RFAVKKLLEFAQDTDDVSARNVLTKLAVLYSTWSLEKHLATFYED---EEDAITEALQSL 57
+ +K E + D + + VLT+LA LY+ W LEKH F D I + + +
Sbjct: 58 LYLLKAFYERINEIADPALKPVLTRLAKLYALWILEKHSGDFLRFGYLSPDQIDQVREQI 117
>gnl|CDD|173839 cd01150, AXO, Peroxisomal acyl-CoA oxidase. Peroxisomal acyl-CoA
oxidases (AXO) catalyze the first set in the peroxisomal
fatty acid beta-oxidation, the alpha,beta
dehydrogenation of the corresponding trans-enoyl-CoA by
FAD, which becomes reduced. In a second oxidative
half-reaction, the reduced FAD is reoxidized by
molecular oxygen. AXO is generally a homodimer, but it
has been reported to form a different type of oligomer
in yeast. There are several subtypes of AXO's, based on
substrate specificity. Palmitoyl-CoA oxidase acts on
straight-chain fatty acids and prostanoids; whereas, the
closely related Trihydroxycoprostanoly-CoA oxidase has
the greatest activity for 2-methyl branched side chains
of bile precursors. Pristanoyl-CoA oxidase, acts on
2-methyl branched fatty acids. AXO has an additional
domain, C-terminal to the region with similarity to
acyl-CoA dehydrogenases, which is included in this
alignment.
Length = 610
Score = 44.2 bits (105), Expect = 7e-05
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 1 RFAVKKLLEFAQDTDDVSARNVLTKLAVLYSTWSLEKHLATFYED 45
+++ E ++ D S R VL +L LY+ W LE+H+A F E
Sbjct: 505 YTVLQRFHESVEEIVDPSVRAVLKRLCDLYALWLLEEHIADFLEG 549
>gnl|CDD|227381 COG5048, COG5048, FOG: Zn-finger [General function prediction
only].
Length = 467
Score = 37.0 bits (85), Expect = 0.013
Identities = 35/186 (18%), Positives = 55/186 (29%), Gaps = 8/186 (4%)
Query: 80 SCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHM--TS 137
S +S+ + + D K + C F L RH+ +
Sbjct: 254 SSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRHLRSVN 313
Query: 138 HD-EDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTM----KQY 192
H E K + C C K F+ LK H++ H + L KF +
Sbjct: 314 HSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQ 373
Query: 193 STHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLV-CKGCGKQFKVPCR 251
S + C ++F ++L H H++ C K F
Sbjct: 374 SLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYN 433
Query: 252 LREHYK 257
L H K
Sbjct: 434 LIPHKK 439
Score = 35.4 bits (81), Expect = 0.039
Identities = 29/155 (18%), Positives = 52/155 (33%), Gaps = 11/155 (7%)
Query: 191 QYSTHLKEHSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPEDLVCKGCGKQFKVPC 250
S E+S+ S P + + KS ++ S ++
Sbjct: 214 SSSDQNLENSSSSLPLTTNSQLSPKSL--LSQSPSSLSSSDSSSSASESPRSSLPTASSQ 271
Query: 251 RLREHYKAVHES---TKNFKCTYDGCKLLFSTKSALKRHNKSKH---LNMRMFPCPLVTC 304
+ + K C + FS S L RH +S + +++ F CP C
Sbjct: 272 SSSPNESDSSSEKGFSLPIKSKQ--CNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLC 329
Query: 305 GKSFLRSEHLQEHMLQHNENKPKFTCPYQDCLMSY 339
GK F R++ L+ H+L H + + +
Sbjct: 330 GKLFSRNDALKRHILLH-TSISPAKEKLLNSSSKF 363
Score = 34.3 bits (78), Expect = 0.10
Identities = 27/123 (21%), Positives = 45/123 (36%), Gaps = 1/123 (0%)
Query: 79 WSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLRHMTSH 138
+SCP C + K H+L H P K KL +++ ++
Sbjct: 322 FSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKF-SPLLNNEPPQSLQQYKD 380
Query: 139 DEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKE 198
++ K +C + F SNL +H++ H C+ C + F H K
Sbjct: 381 LKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKI 440
Query: 199 HSN 201
H+N
Sbjct: 441 HTN 443
Score = 32.4 bits (73), Expect = 0.43
Identities = 40/205 (19%), Positives = 61/205 (29%), Gaps = 9/205 (4%)
Query: 136 TSHDEDKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTH 195
+S D + + + S+ K +L + C F + H
Sbjct: 249 SSSDSSSSASESPRSSLPTASSQSSSPNESDSSSEKGFSLPIKSKQCNISFSRSSPLTRH 308
Query: 196 LKE---HSNVSAPYMCDYKGCGKSFYLMASLKSHQRVHVTNPED----LVCKGCGKQFKV 248
L+ P+ C Y CGK F +LK H +H + L
Sbjct: 309 LRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLN 368
Query: 249 PCRLREHYKAVHES-TKNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKS 307
+ + K + + C F S L H HL+ R + C C KS
Sbjct: 369 NEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHI-ITHLSFRPYNCKNPPCSKS 427
Query: 308 FLRSEHLQEHMLQHNENKPKFTCPY 332
F R +L H H + P
Sbjct: 428 FNRHYNLIPHKKIHTNHAPLLCSIL 452
>gnl|CDD|227516 COG5189, SFP1, Putative transcriptional repressor regulating G2/M
transition [Transcription / Cell division and chromosome
partitioning].
Length = 423
Score = 32.4 bits (73), Expect = 0.32
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 141 DKKCYPCDQKNCNKRFTTLSNLKMHMVRHGKPLTLCCEELGCGRKFQTMKQYSTHLKEHS 200
D K Y C + CNK++ + LK HM HG ++L + M +S K
Sbjct: 346 DGKPYKCPVEGCNKKYKNQNGLKYHM-LHGH----QNQKLHENPSPEKMNIFSAKDK--- 397
Query: 201 NVSAPYMCDYKGCGKSFYLMASLKSHQRVHVT 232
PY C+ C K + + LK H R H
Sbjct: 398 ----PYRCEV--CDKRYKNLNGLKYH-RKHSH 422
Score = 31.2 bits (70), Expect = 0.78
Identities = 22/90 (24%), Positives = 33/90 (36%), Gaps = 15/90 (16%)
Query: 264 KNFKCTYDGCKLLFSTKSALKRHNKSKHLNMRMFPCPLVTCGKSFLRSEHLQEHMLQHNE 323
K +KC +GC + ++ LK H H N ++ P F +
Sbjct: 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSA------------K 395
Query: 324 NKPKFTCPYQDCLMSYVAKSSLYAHLKHVH 353
+KP + C C Y + L H KH H
Sbjct: 396 DKP-YRCEV--CDKRYKNLNGLKYHRKHSH 422
Score = 28.5 bits (63), Expect = 6.4
Identities = 24/92 (26%), Positives = 34/92 (36%), Gaps = 19/92 (20%)
Query: 74 KKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTANNTPCMWGFFSKHKLLR 133
K + + CP+ CN N N K H+L H + N +P
Sbjct: 345 KDGKPYKCPVEGCNKKYKNQNGLKYHML-HGHQNQ----KLHENPSP------------E 387
Query: 134 HMTSHDEDKKCYPCDQKNCNKRFTTLSNLKMH 165
M K Y C+ C+KR+ L+ LK H
Sbjct: 388 KMNIFSAKDKPYRCEV--CDKRYKNLNGLKYH 417
>gnl|CDD|200998 pfam00096, zf-C2H2, Zinc finger, C2H2 type. The C2H2 zinc finger
is the classical zinc finger domain. The two conserved
cysteines and histidines co-ordinate a zinc ion. The
following pattern describes the zinc finger.
#-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C] Where X can
be any amino acid, and numbers in brackets indicate the
number of residues. The positions marked # are those
that are important for the stable fold of the zinc
finger. The final position can be either his or cys. The
C2H2 zinc finger is composed of two short beta strands
followed by an alpha helix. The amino terminal part of
the helix binds the major groove in DNA binding zinc
fingers. The accepted consensus binding sequence for Sp1
is usually defined by the asymmetric hexanucleotide core
GGGCGG but this sequence does not include, among others,
the GAG (=CTC) repeat that constitutes a high-affinity
site for Sp1 binding to the wt1 promoter.
Length = 22
Score = 26.2 bits (58), Expect = 2.3
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 150 KNCNKRFTTLSNLKMHMVRH 169
+C K F+ SNLK H+ H
Sbjct: 3 PDCGKSFSRKSNLKRHLRTH 22
>gnl|CDD|219584 pfam07800, DUF1644, Protein of unknown function (DUF1644). This
family consists of sequences found in a number of
hypothetical plant proteins of unknown function. The
region of interest contains nine highly conserved
cysteine residues and is approximately 160 amino acids
in length, and is probably a zinc-binding domain.
Length = 148
Score = 28.5 bits (64), Expect = 3.0
Identities = 28/103 (27%), Positives = 39/103 (37%), Gaps = 17/103 (16%)
Query: 199 HSNVSAPYMCD----YKGCGKSFYLMASLK--SHQRVHVTNPEDLVCKGCG---KQFKVP 249
H PYMCD + C F S K S + + +L C C K + V
Sbjct: 23 HDKGCRPYMCDTSHRHSNCLDQFKKAYSKKRNSGKDSEKEDSTELTCPLCRGEVKGWTVV 82
Query: 250 CRLREHYKAVHESTKNFKCTYDGCKLLFS-TKSALKRHNKSKH 291
R + S C +GC FS T L++H +S+H
Sbjct: 83 EPARRFLNSKKRS-----CMQEGCS--FSGTYRELRKHARSEH 118
>gnl|CDD|149343 pfam08229, SHR3_chaperone, ER membrane protein SH3. This family of
proteins are membrane localised chaperones that are
required for correct plasma membrane localisation of
amino acid permeases (AAPs). SH3 prevents AAPs proteins
from aggregating and assists in their correct folding.
In the absence of SH3, AAPs are retained in the ER.
Length = 196
Score = 28.8 bits (65), Expect = 3.2
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 7/48 (14%)
Query: 30 YSTWSLEKHLATFYEDEEDAITEALQSLGINKEYFISSTGGKNSKKQQ 77
Y+ W K L F +E +A A + + K SKK++
Sbjct: 156 YAEWKDAKLLEEFAAEEAEAAAAAKEEES-------AEGEKKESKKKK 196
>gnl|CDD|212564 cd11674, lambda-1, inner capsid protein lambda-1 or VP3. The
reovirus inner capsid protein lambda-1 displays
nucleoside triphosphate phosphohydrolase (NTPase),
RNA-5'-triphosphatase (RTPase), and RNA helicase
activity and may play a role in the transcription of the
virus genome, the unwinding or reannealing of
double-stranded RNA during RNA synthesis. The RTPase
activity constitutes the first step in the capping of
RNA, resulting in a 5'-diphosphorylated RNA plus-strand.
lambda1 is an Orthoreovirus core protein, VP3 is the
homologous core protein in Aquareoviruses.
Length = 1166
Score = 29.0 bits (65), Expect = 5.7
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 233 NPEDLVCKGCGKQFKVPCRLREHYKAVH 260
NP VC C +F +L EH + H
Sbjct: 70 NPSSYVCNVCMAEFSSMDQLAEHQRTTH 97
>gnl|CDD|168292 PRK05906, PRK05906, lipid A biosynthesis lauroyl acyltransferase;
Provisional.
Length = 454
Score = 28.6 bits (64), Expect = 6.5
Identities = 27/117 (23%), Positives = 46/117 (39%), Gaps = 15/117 (12%)
Query: 1 RFAVKKLLEFAQDTDDVSARNVLTKLAVLYSTWSLEKHLATFYEDEEDAITEALQSLGIN 60
++A +L + T + + L +LA YS SL LA +E + + +
Sbjct: 323 KYAYSHILVIVKGTSLQALQRFLIELAEFYSGASL--SLALINAADETVLANSFPPYSL- 379
Query: 61 KEYFISSTGGKNSKKQQLWSCPIVNCNFTSVNLNTFKIHLLKHFDKRPFKCKLTTAN 117
+ + S +++L + P N +L L KHF KR K+ T N
Sbjct: 380 QFF---------SSEEELLALP--NSFPAIFDLFGLSRKLRKHF-KRTGSRKIYTRN 424
>gnl|CDD|197676 smart00355, ZnF_C2H2, zinc finger.
Length = 23
Score = 24.7 bits (54), Expect = 7.2
Identities = 11/25 (44%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 297 FPCPLVTCGKSFLRSEHLQEHMLQH 321
+ CP CGK F L+EHM H
Sbjct: 1 YRCPE--CGKVFKSKSALREHMRTH 23
>gnl|CDD|239307 cd03009, TryX_like_TryX_NRX, Tryparedoxin (TryX)-like family, TryX
and nucleoredoxin (NRX) subfamily; TryX and NRX are
thioredoxin (TRX)-like protein disulfide oxidoreductases
that alter the redox state of target proteins via the
reversible oxidation of an active center CXXC motif.
TryX is involved in the regulation of oxidative stress
in parasitic trypanosomatids by reducing TryX
peroxidase, which in turn catalyzes the reduction of
hydrogen peroxide and organic hydroperoxides. TryX
derives reducing equivalents from reduced trypanothione,
a polyamine peptide conjugate unique to trypanosomatids,
which is regenerated by the NADPH-dependent flavoprotein
trypanothione reductase. Vertebrate NRX is a 400-amino
acid nuclear protein with one redox active TRX domain
containing a CPPC active site motif followed by one
redox inactive TRX-like domain. Mouse NRX transcripts
are expressed in all adult tissues but is restricted to
the nervous system and limb buds in embryos. Plant NRX,
longer than the vertebrate NRX by about 100-200 amino
acids, is a nuclear protein containing a redox inactive
TRX-like domain between two redox active TRX domains.
Both vertebrate and plant NRXs show thiol oxidoreductase
activity in vitro. Their localization in the nucleus
suggests a role in the redox regulation of nuclear
proteins such as transcription factors.
Length = 131
Score = 27.2 bits (61), Expect = 7.3
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 5/23 (21%)
Query: 249 PCR-----LREHYKAVHESTKNF 266
PCR L E Y+ + ES KNF
Sbjct: 32 PCRAFTPKLVEFYEKLKESGKNF 54
>gnl|CDD|240017 cd04659, Piwi_piwi-like_ProArk, Piwi_piwi-like_ProArk: PIWI domain,
Piwi-like subfamily found in Archaea and Bacteria. RNA
silencing refers to a group of related gene-silencing
mechanisms mediated by short RNA molecules, including
siRNAs, miRNAs, and heterochromatin-related guide RNAs.
The central component of the RNA-induced silencing
complex (RISC) and related complexes is Argonaute. The
PIWI domain is the C-terminal portion of Argonaute and
consists of two subdomains, one of which provides the 5'
anchoring of the guide RNA and the other, the catalytic
site for slicing. This domain is also found in closely
related proteins, including the Piwi subfamily, where it
is believed to perform a crucial role in germline cells,
via a similar mechanism.
Length = 404
Score = 27.7 bits (62), Expect = 9.2
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 15/60 (25%)
Query: 3 AVKKLLEFAQDTDDVSARNVLTKLAVLYSTWSLEKHLATFYEDEEDAITEALQSLGINKE 62
++ E + D +L + F ++E + + EAL+ LGI +
Sbjct: 247 VLEGYRESHRGRDPK-------RLVLHKDG--------RFTDEEIEGLKEALEELGIKVD 291
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 0.133 0.423
Gapped
Lambda K H
0.267 0.0655 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,774,873
Number of extensions: 1482287
Number of successful extensions: 1317
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1305
Number of HSP's successfully gapped: 51
Length of query: 359
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 261
Effective length of database: 6,590,910
Effective search space: 1720227510
Effective search space used: 1720227510
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: 60 (27.0 bits)