RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7951
(122 letters)
>gnl|CDD|150393 pfam09712, PHA_synth_III_E, Poly(R)-hydroxyalkanoic acid synthase
subunit (PHA_synth_III_E). This entry represents the
PhaE subunit of the heterodimeric class (class III) of
polymerase for poly(R)-hydroxyalkanoic acids (PHAs),
carbon and energy storage polymers of many bacteria. The
most common PHA is polyhydroxybutyrate but about 150
different constituent hydroxyalkanoic acids (HAs) have
been identified in various species.
Length = 293
Score = 29.4 bits (66), Expect = 0.43
Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 44 RIGSTEMSLTEEMTCVLREWLVLWKSLYLSDRKSFKALEKRMHEL 88
R+ + +M L + V+ E L SL L R ++R+ EL
Sbjct: 243 RLSNAQMRLRRALQQVVDELL---GSLGLPTRSELDTAQRRLQEL 284
>gnl|CDD|234752 PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 638
Score = 28.1 bits (64), Expect = 1.3
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 78 FKALEKRMHELIQLRSKILSQTLPVDELKRV 108
+A+EK M E+I+ I + + +E +
Sbjct: 117 LEAIEKEMKEIIKENYPIEREVVSREEAIEL 147
>gnl|CDD|237050 PRK12305, thrS, threonyl-tRNA synthetase; Reviewed.
Length = 575
Score = 27.1 bits (61), Expect = 2.9
Identities = 6/30 (20%), Positives = 15/30 (50%)
Query: 78 FKALEKRMHELIQLRSKILSQTLPVDELKR 107
K +EK+M ++I+ + + +E +
Sbjct: 55 LKKIEKKMKKIIKRGLPFEREEVSREEARE 84
>gnl|CDD|214532 smart00136, LamNT, Laminin N-terminal domain (domain VI).
N-terminal domain of laminins and laminin-related
protein such as Unc-6/ netrins.
Length = 238
Score = 26.2 bits (58), Expect = 4.6
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 4 FTEALVVQKSTPHQNIRVLFTDLNT--------RDTDREKVFLVCYVIRIG 46
F + V+Q+ NIRV T L T R + + I +G
Sbjct: 187 FDNSPVLQEWVTATNIRVRLTRLRTLGDELMDDRPEVTRRYYYAISDIAVG 237
>gnl|CDD|224060 COG1137, YhbG, ABC-type (unclassified) transport system, ATPase
component [General function prediction only].
Length = 243
Score = 26.0 bits (58), Expect = 6.2
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 10/35 (28%)
Query: 16 HQNIRVLFTDLNTRDT----DREKVFLVCYVIRIG 46
+ I VL TD N R+T DR Y+I G
Sbjct: 187 DRGIGVLITDHNVRETLDICDR------AYIISDG 215
>gnl|CDD|233026 TIGR00564, trpE_most, anthranilate synthase component I,
non-proteobacterial lineages. This enzyme resembles
some other chorismate-binding enzymes, including
para-aminobenzoate synthase (pabB) and isochorismate
synthase. There is a fairly deep split between two sets,
seen in the pattern of gaps as well as in amino acid
sequence differences. Archaeal enzymes have been
excluded from this model (and are now found in
TIGR01820) as have a clade of enzymes which constitute a
TrpE paralog which may have PabB activity (TIGR01824).
This allows the B. subtilus paralog which has been shown
to have PabB activity to score below trusted to this
model. This model contains sequences from gram-positive
bacteria, certain proteobacteria, cyanobacteria, plants,
fungi and assorted other bacteria.A second family of
TrpE enzymes is modelled by TIGR00565. The breaking of
the TrpE family into these diverse models allows for the
separation of the models for the related enzyme, PabB
[Amino acid biosynthesis, Aromatic amino acid family].
Length = 454
Score = 25.8 bits (57), Expect = 6.5
Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 73 SDRKSFKALEKRMHELIQLRSKILSQTLPVDELKRVKHSVTSTMD 117
+ R + A + R+ L+ L +PV + S TS +
Sbjct: 149 ASRSAKAAADARLEALVADLQDPLLPEVPVPYPAAL--SFTSNYE 191
>gnl|CDD|240346 PTZ00288, PTZ00288, glucokinase 1; Provisional.
Length = 405
Score = 25.7 bits (56), Expect = 7.3
Identities = 17/68 (25%), Positives = 34/68 (50%)
Query: 41 YVIRIGSTEMSLTEEMTCVLREWLVLWKSLYLSDRKSFKALEKRMHELIQLRSKILSQTL 100
Y++R+ + +T VL +++ S + + ++ K L+ R+ E R K LS+T
Sbjct: 310 YLMRLAAEISMQFLPLTVVLMGDNIVYNSFFFDNPENVKQLQARITEHKMERLKFLSRTT 369
Query: 101 PVDELKRV 108
+ + K V
Sbjct: 370 FLRQKKSV 377
>gnl|CDD|178546 PLN02961, PLN02961, alanine-tRNA ligase.
Length = 223
Score = 25.4 bits (56), Expect = 8.3
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 73 SDRKSF-KALEKRMHELIQLRSKILSQTLPVDE 104
+ S LE +ELI K+ + LP DE
Sbjct: 127 GELDSKQDELEAEANELIAEGGKVSAAVLPYDE 159
>gnl|CDD|220139 pfam09201, SRX, SRX. Members of this family, which are
predominantly found in eukaryotic signal recognition
particle receptor alpha, consist of a central
six-stranded anti-parallel beta-sheet sandwiched by
helix alpha1 on one side and helices alpha2-alpha4 on
the other. They interact with the small GTPase SR-beta,
forming a complex that matches a class of small G
protein-effector complexes, including Rap-Raf,
Ras-PI3K(gamma), Ras-RalGDS, and Arl2-PDE(delta).
Length = 148
Score = 25.2 bits (55), Expect = 9.8
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 41 YVIRIGSTEMSLTEEMTCVLREWLVLWKSLYLSD 74
+VI + L E VL L LW SL L++
Sbjct: 80 FVITYAEPSLELNNEAEQVLDLALALWDSLGLNE 113
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 0.379
Gapped
Lambda K H
0.267 0.0704 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,895,980
Number of extensions: 497389
Number of successful extensions: 420
Number of sequences better than 10.0: 1
Number of HSP's gapped: 420
Number of HSP's successfully gapped: 21
Length of query: 122
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 38
Effective length of database: 7,211,866
Effective search space: 274050908
Effective search space used: 274050908
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 (22.0 bits)
S2: 53 (24.2 bits)