RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11793
(123 letters)
>gnl|CDD|215646 pfam00001, 7tm_1, 7 transmembrane receptor (rhodopsin family).
This family contains, amongst other G-protein-coupled
receptors (GCPRs), members of the opsin family, which
have been considered to be typical members of the
rhodopsin superfamily. They share several motifs, mainly
the seven transmembrane helices, GCPRs of the rhodopsin
superfamily. All opsins bind a chromophore, such as
11-cis-retinal. The function of most opsins other than
the photoisomerases is split into two steps: light
absorption and G-protein activation. Photoisomerases, on
the other hand, are not coupled to G-proteins - they are
thought to generate and supply the chromophore that is
used by visual opsins.
Length = 251
Score = 59.6 bits (145), Expect = 7e-12
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 50 YRTKSLKTPSNLFIFNQALLDLCMMV-NMPMLVVNS-FYQRVIGWETGCDIYGLFGSISG 107
RTK L+TP+N+F+ N A+ DL ++ P + G + C + G ++G
Sbjct: 4 LRTKKLRTPTNIFLLNLAVADLLFLLTLPPWALYYLVGGDWPFG-DALCKLVGFLFVVNG 62
Query: 108 FGSAMNNAVIAYDRY 122
+ S + I+ DRY
Sbjct: 63 YASILLLTAISIDRY 77
Score = 36.9 bits (86), Expect = 0.001
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 2/51 (3%)
Query: 3 VNMPMLVVNS-FYQRVIGWETGCDIYGLFGSISGFGSAMNNAVIAYDRYRT 52
P + G + C + G ++G+ S + I+ DRY
Sbjct: 30 TLPPWALYYLVGGDWPFG-DALCKLVGFLFVVNGYASILLLTAISIDRYLA 79
>gnl|CDD|165021 PHA02638, PHA02638, CC chemokine receptor-like protein;
Provisional.
Length = 417
Score = 35.0 bits (80), Expect = 0.006
Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 53 KSLKTPSNLFIFNQALLDLCMMVNMPMLVVNSFYQRVIGWETGCDIYGLFGSISGFGSAM 112
K +KT ++++IFN A+ DL +++ P ++ N F Q + G + C + I F +
Sbjct: 126 KKIKTITDIYIFNLAISDLIFVIDFPFIIYNEFDQWIFG-DFMCKVISASYYIGFFSNMF 184
Query: 113 NNAVIAYDRY 122
+++ DRY
Sbjct: 185 LITLMSIDRY 194
>gnl|CDD|219851 pfam08456, Vmethyltransf_C, Viral methyltransferase C-terminal.
This domain is found to the C-terminus of the viral
methyltransferase domain (pfam01660) in
single-stranded-RNA positive-strand viruses with no DNA
stage in the Virgaviridae family.
Length = 208
Score = 27.8 bits (62), Expect = 1.4
Identities = 16/75 (21%), Positives = 23/75 (30%), Gaps = 23/75 (30%)
Query: 12 SFYQRV-------IGWETGCDIYGLFGSISGFGSAMNNAVIAY----DRYRTKSLKTPSN 60
S YQR +G+ G D V Y DR + P+N
Sbjct: 32 SVYQRALRSFARWLGYAHGSDAIDF------------KDVPLYVEIEDRIKLWKKHAPNN 79
Query: 61 LFIFNQALLDLCMMV 75
F + LD + +
Sbjct: 80 GFFLDFEDLDEKIRL 94
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 27.0 bits (60), Expect = 3.1
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 44 VIAYDRYRTKSLKTPSNLFIFN 65
V+ Y+ Y+ K P L + N
Sbjct: 1470 VLLYNTYKIKPWIIPIKLLLLN 1491
>gnl|CDD|181282 PRK08195, PRK08195, 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic
acid aldolase,; Validated.
Length = 337
Score = 26.3 bits (59), Expect = 4.3
Identities = 24/99 (24%), Positives = 36/99 (36%), Gaps = 41/99 (41%)
Query: 4 NMPMLVVNSFYQRVIGWETGCDIYGLFGSISGFGSAMNNAVIAYDRYRTKSLKTPSNLFI 63
N+ + V NS + E G + GS++G G+ N TP + +
Sbjct: 199 NLGLGVANS----LAAVEAGATR--IDGSLAGLGAGAGN--------------TPLEVLV 238
Query: 64 FNQALLDLCMMVNMPMLVVNSFYQRVIGWETGCDIYGLF 102
A+LD +GWETG D+Y L
Sbjct: 239 ---AVLDR------------------MGWETGVDLYKLM 256
>gnl|CDD|222976 PHA03087, PHA03087, G protein-coupled chemokine receptor-like
protein; Provisional.
Length = 335
Score = 26.3 bits (58), Expect = 4.6
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 7/98 (7%)
Query: 26 IYGLFGSISGFGSAMNNAVIAYDRYRTKSLKTPSNLFIFNQALLDLCMMVNMPMLVVNSF 85
+Y G N ++ Y +TK +KTP ++++ N A+ DL ++ +P +
Sbjct: 46 VYSTIFFFGLVG----NIIVIYVLTKTK-IKTPMDIYLLNLAVSDLLFVMTLPFQIYYYI 100
Query: 86 YQRVIGWETGCDIYGLFGSISGFGSAMN-NAVIAYDRY 122
+ E C I I GF ++MN V++ DRY
Sbjct: 101 LFQWSFGEFACKIVSGLYYI-GFYNSMNFITVMSVDRY 137
>gnl|CDD|240656 cd12179, 2-Hacid_dh_14, Putative D-isomer specific 2-hydroxyacid
dehydrogenases, NAD-binding and catalytic domains.
2-Hydroxyacid dehydrogenases catalyze the conversion of
a wide variety of D-2-hydroxy acids to their
corresponding keto acids. The general mechanism is
(R)-lactate + acceptor to pyruvate + reduced acceptor.
Formate/glycerate and related dehydrogenases of the
D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain. Some related proteins have similar
structural subdomain but with a tandem arrangement of
the catalytic and NAD-binding subdomains in the linear
sequence. While many members of this family are dimeric,
alanine DH is hexameric and phosphoglycerate DH is
tetrameric.
Length = 306
Score = 25.7 bits (57), Expect = 6.8
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 9/35 (25%)
Query: 27 YGLFGS-----ISGFGSAMNNAVIAYDRYRTKSLK 56
YG G +SGFG VIAYD+Y+
Sbjct: 146 YGNMGKAFAKRLSGFGCK----VIAYDKYKNFGDA 176
>gnl|CDD|132261 TIGR03217, 4OH_2_O_val_ald, 4-hydroxy-2-oxovalerate aldolase.
Members of this protein family are
4-hydroxy-2-oxovalerate aldolase, also called
4-hydroxy-2-ketovalerate aldolase and
2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of
the pathway for the meta-cleavage of catechol, produces
pyruvate and acetaldehyde. Acetaldehyde is then
converted by acetaldehyde dehydrogenase (acylating)
(DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are
tightly associated [Energy metabolism, Other].
Length = 333
Score = 25.8 bits (57), Expect = 7.5
Identities = 23/98 (23%), Positives = 35/98 (35%), Gaps = 41/98 (41%)
Query: 4 NMPMLVVNSFYQRVIGWETGCDIYGLFGSISGFGSAMNNAVIAYDRYRTKSLKTPSNLFI 63
N+ + V NS + E G + S+ G G+ NA P +F+
Sbjct: 198 NLSLAVANS----IAAIEAGATR--IDASLRGLGAGAGNA--------------PLEVFV 237
Query: 64 FNQALLDLCMMVNMPMLVVNSFYQRVIGWETGCDIYGL 101
A+LD +GW TGCD++ L
Sbjct: 238 ---AVLDR------------------LGWNTGCDLFKL 254
>gnl|CDD|226310 COG3787, COG3787, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 145
Score = 25.2 bits (55), Expect = 7.7
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 62 FIFNQALLDLCMMVNMPMLVVNSFY 86
F+ Q +L C+ + ++FY
Sbjct: 8 FLKKQHVLTWCVQQEGELWCASAFY 32
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
0.328 0.141 0.442
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,352,030
Number of extensions: 552591
Number of successful extensions: 668
Number of sequences better than 10.0: 1
Number of HSP's gapped: 667
Number of HSP's successfully gapped: 28
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)