RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy306
(190 letters)
>gnl|CDD|112130 pfam03301, Trp_dioxygenase, Tryptophan 2,3-dioxygenase.
Length = 346
Score = 169 bits (429), Expect = 6e-52
Identities = 78/132 (59%), Positives = 97/132 (73%), Gaps = 1/132 (0%)
Query: 15 LDAESESLQSCQIADYKKRKEMFQTIFDEDIHASLLSRGDRSLSHKALQGAILITMYRDE 74
E LQ A+Y+K E+ + DE H LLS+G+R LSH+ALQGA++I YRDE
Sbjct: 216 YPIPDEVLQRDLTAEYEKAPEVLASWLDEKRHDYLLSKGERRLSHRALQGALMIYFYRDE 275
Query: 75 PRFHLPSQILSALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTSGYQYLRSTLSDRYK 134
PRF P Q+L ALMDID KWR+NHV+MVQRMIGS+ GTGG+SGY YLRST+SDRYK
Sbjct: 276 PRFSQPYQLLEALMDIDSLFTKWRYNHVVMVQRMIGSK-TGTGGSSGYAYLRSTVSDRYK 334
Query: 135 IFLDLFNVSSFL 146
+F DLFN+S++L
Sbjct: 335 VFPDLFNLSTYL 346
>gnl|CDD|226014 COG3483, TDO2, Tryptophan 2,3-dioxygenase (vermilion) [Amino acid
transport and metabolism].
Length = 262
Score = 65.6 bits (160), Expect = 3e-13
Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 3/82 (3%)
Query: 65 AILITMYRDEPRFHLPSQILSALMDIDCCTAKWRHNHVLMVQRMIGSQHLGTGGTSGYQY 124
A + +YRD R+ ++ L+D++ +WR HV V+R+IG + GTGGTSG Y
Sbjct: 184 AAWLEVYRDPQRYWELYELAEKLVDLEDSFRRWRFRHVTTVERIIGFKR-GTGGTSGVGY 242
Query: 125 LRSTLSDRYKIFLDLFNVSSFL 146
LRS L +F +L+ V + L
Sbjct: 243 LRSML--DVVLFPELWTVRTLL 262
>gnl|CDD|188272 TIGR03036, trp_2_3_diox, tryptophan 2,3-dioxygenase. Members of
this family are tryptophan 2,3-dioxygenase, as confirmed
by several experimental characterizations, and by
conserved operon structure for many of the other
members. This enzyme represents the first of a two-step
degradation to L-kynurenine, and a three-step pathway
(via kynurenine) to anthranilate plus alanine [Energy
metabolism, Amino acids and amines].
Length = 264
Score = 55.0 bits (133), Expect = 2e-09
Identities = 31/105 (29%), Positives = 54/105 (51%), Gaps = 6/105 (5%)
Query: 44 DIHASLLSRGDRSLSHKALQG--AILITMYRDEPRFHLPSQILSALMDIDCCTAKWRHNH 101
I A +L R D + ++ A + +YRD + ++ L+D++ +WR H
Sbjct: 164 PIPAEVLER-DWTQPYEPNPSVEAAWLEVYRDPDTYWELYELAEKLVDLEDLFRQWRFRH 222
Query: 102 VLMVQRMIGSQHLGTGGTSGYQYLRSTLSDRYKIFLDLFNVSSFL 146
+ V+R+IG + GTGG+SG YL+ L +F +L+ V + L
Sbjct: 223 LTTVERIIGFK-RGTGGSSGVAYLKKMLDVV--LFPELWTVRTEL 264
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 30.0 bits (68), Expect = 0.93
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 1 MQGRDKQPKLQIDYLDAESESLQSCQIADYKKRKEMFQTIFDED 44
+ R + + +ID L AE E L+ +I + +KR++ + E
Sbjct: 320 AEERLAKLEAEIDKLLAEIEELER-EIEEERKRRDKLTEEYAEL 362
>gnl|CDD|226481 COG3972, COG3972, Superfamily I DNA and RNA helicases [General
function prediction only].
Length = 660
Score = 28.3 bits (63), Expect = 2.6
Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 6 KQPKLQIDYLDAESESLQS-CQIADYKKRKEMFQTIFDEDIHASLLSRGDRSLSHKAL 62
+ + + DA ++ Q ++R + T+ E + A L S++H +
Sbjct: 605 DISVIDLIHRDASRREIKFLKQDKVRRER--LLSTLGSELLIAEDLDA--ESMAHVRM 658
>gnl|CDD|240750 cd12304, RRM_Set1, RNA recognition motif in the Set1-like family of
histone-lysine N-methyltransferases. This subfamily
corresponds to the RRM of the Set1-like family of
histone-lysine N-methyltransferases which includes Set1A
and Set1B that are ubiquitously expressed vertebrates
histone methyltransferases exhibiting high homology to
yeast Set1. Set1A and Set1B proteins exhibit a largely
non-overlapping subnuclear distribution in euchromatic
nuclear speckles, strongly suggesting that they bind to
a unique set of target genes and thus make non-redundant
contributions to the epigenetic control of chromatin
structure and gene expression. With the exception of the
catalytic component, the subunit composition of the
Set1A and Set1B histone methyltransferase complexes are
identical. Each complex contains six human homologs of
the yeast Set1/COMPASS complex, including Set1A or
Set1B, Ash2 (homologous to yeast Bre2), CXXC finger
protein 1 (CFP1; homologous to yeast Spp1), Rbbp5
(homologous to yeast Swd1), Wdr5 (homologous to yeast
Swd3), and Wdr82 (homologous to yeast Swd2). The genomic
targeting of these complexes is determined by the
identity of the catalytic subunit present in each
histone methyltransferase complex. Thus, the Set1A and
Set1B complexes may exhibit both overlapping and
non-redundant properties. Both Set1A and Set1B contain
an N-terminal RNA recognition motif (RRM), also termed
RBD (RNA binding domain) or RNP (ribonucleoprotein
domain), an N- SET domain, and a C-terminal catalytic
SET domain followed by a post-SET domain. In contrast to
Set1B, Set1A additionally contains an HCF-1 binding
motif that interacts with HCF-1 in vivo. .
Length = 93
Score = 26.5 bits (59), Expect = 3.6
Identities = 9/31 (29%), Positives = 12/31 (38%), Gaps = 10/31 (32%)
Query: 168 HHPRNREH--------ADSK--KNCVKHLNG 188
HP+ +H K K CV+ LN
Sbjct: 36 FHPKTNKHLGLARVVFDSVKSAKRCVEKLNQ 66
>gnl|CDD|225544 COG2998, TupB, ABC-type tungstate transport system, permease
component [Coenzyme metabolism].
Length = 280
Score = 27.1 bits (60), Expect = 5.4
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 27 IADYKKRKEMFQTIFDEDIHASLLSRGDRSLSHK 60
I D K KE F+ I +E A +SRGD S +
Sbjct: 123 IKDAKNGKEAFEKIAEEK--AKFVSRGDNSGTDS 154
>gnl|CDD|182669 PRK10714, PRK10714, undecaprenyl phosphate
4-deoxy-4-formamido-L-arabinose transferase;
Provisional.
Length = 325
Score = 27.4 bits (61), Expect = 5.5
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 151 YIPVLSGTLKSQLSATPHHPRNREHADSKKNCVKHLN 187
+IP+L+ T + P H RE DSK + ++ +N
Sbjct: 181 FIPILANTFARRAIEIPVHHAEREFGDSKYSFMRLIN 217
>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 27.5 bits (62), Expect = 5.6
Identities = 20/76 (26%), Positives = 26/76 (34%), Gaps = 27/76 (35%)
Query: 9 KLQIDYLDAESESLQSCQIADYKKRKEMFQTIFD-----EDIHASLLSRG----DRSLSH 59
+QID L DY + KE I D E+ + L RG +R
Sbjct: 378 DMQIDELKE-----------DYPELKENRDYILDIVDLEEEKYRETLERGKRIVERLAKK 426
Query: 60 KALQGAI----LITMY 71
K I LI +Y
Sbjct: 427 K---EEIPLDDLIELY 439
>gnl|CDD|185194 PRK15294, PRK15294, putative fimbrial outer membrane usher protein
SthC; Provisional.
Length = 845
Score = 27.0 bits (59), Expect = 7.1
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 29 DYKKRKEMFQTIFDEDIHASLLSRGDRSLSHKALQGAILITMYRDE 74
DY +++ T D + + +R D SLS + G+I +T+Y ++
Sbjct: 473 DYYALEDVLDTYSDNSHYDHVRNRTDLSLSQDIIYGSISLTLYNED 518
>gnl|CDD|232931 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the reaction
(tRNAala + L-alanine + ATP = L-alanyl-tRNAala +
pyrophosphate + AMP) [Protein synthesis, tRNA
aminoacylation].
Length = 851
Score = 27.0 bits (60), Expect = 8.4
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 9/53 (16%)
Query: 28 ADYKKRKEMFQTIFDEDIHASL--LSRG----DRSLSH---KALQGAILITMY 71
+ K+++E + I + + L RG ++ L K L G +Y
Sbjct: 340 PELKEKQEFVEQILELEEERFAKTLERGLRLFEKLLKKLGKKELDGEDAFKLY 392
>gnl|CDD|216277 pfam01065, Adeno_hexon, Hexon, adenovirus major coat protein,
N-terminal domain. Hexon is the major coat protein from
adenovirus type 2. Hexon forms a homo-trimer. The 240
copies of the hexon trimer are organised so that 12 lie
on each of the 20 facets. The central 9 hexons in a
facet are cemented together by 12 copies of polypeptide
IX. The penton complex, formed by the peripentonal
hexons and base hexon (holding in place a fibre), lie at
each of the 12 vertices. The N and C-terminal domains
adopt the same PNGase F-like fold although they are
significantly different in length.
Length = 488
Score = 26.4 bits (59), Expect = 9.7
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 121 GYQYLRSTLSDRYKIFLDLFN 141
YQY+ + L DR + F L+N
Sbjct: 280 SYQYMLADLMDRSRYF-SLWN 299
>gnl|CDD|178207 PLN02597, PLN02597, phosphoenolpyruvate carboxykinase [ATP].
Length = 555
Score = 26.7 bits (59), Expect = 10.0
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 18/50 (36%)
Query: 139 LFNVSSFLLPKQYI-PV-----------------LSGTLKSQLSATPHHP 170
LF++ +L+P + I + LSGT K+ LS P+
Sbjct: 220 LFSLMHYLMPMRGILSLHSGCNMGKDGDVALFFGLSGTGKTTLSTDPNRY 269
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
0.321 0.134 0.399
Gapped
Lambda K H
0.267 0.0596 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,376,154
Number of extensions: 838068
Number of successful extensions: 670
Number of sequences better than 10.0: 1
Number of HSP's gapped: 666
Number of HSP's successfully gapped: 20
Length of query: 190
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 99
Effective length of database: 6,901,388
Effective search space: 683237412
Effective search space used: 683237412
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: 56 (25.6 bits)