RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8547
(115 letters)
>gnl|CDD|197509 smart00086, PAC, Motif C-terminal to PAS motifs (likely to
contribute to PAS structural domain). PAC motif occurs
C-terminal to a subset of all known PAS motifs. It is
proposed to contribute to the PAS domain fold.
Length = 43
Score = 38.3 bits (90), Expect = 2e-05
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
G+ W L+ PI++E EV L +D+T
Sbjct: 11 GSYIWVLVSASPIRDEDGEVEGILGVVRDIT 41
Score = 35.6 bits (83), Expect = 2e-04
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 4/38 (10%)
Query: 9 YRQR----TPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
YR R + W L+ PI++E EV L +D+T
Sbjct: 4 YRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDIT 41
>gnl|CDD|222120 pfam13426, PAS_9, PAS domain.
Length = 101
Score = 38.1 bits (89), Expect = 9e-05
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVT 94
G PF L+ P+++E EVV + +D+T
Sbjct: 70 GEPFPVLVSASPVRDEDGEVVGIVGILRDIT 100
Score = 35.8 bits (83), Expect = 8e-04
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 13 TPFWCLLDIVPIKNEKREVVLYLASHKDVT 42
PF L+ P+++E EVV + +D+T
Sbjct: 71 EPFPVLVSASPVRDEDGEVVGIVGILRDIT 100
>gnl|CDD|237426 PRK13558, PRK13558, bacterio-opsin activator; Provisional.
Length = 665
Score = 37.9 bits (88), Expect = 4e-04
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 8 NYRQR-TPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQEL 63
NYR+ + FW +DI PI++E V Y+ DVT K A++A + + +Q L
Sbjct: 228 NYRKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELA--LQRERRKLQRL 282
Score = 37.5 bits (87), Expect = 7e-04
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMADNGEGDYEDMQEL 115
G+ FW +DI PI++E V Y+ DVT K A++A + + +Q L
Sbjct: 233 GSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELA--LQRERRKLQRL 282
>gnl|CDD|116037 pfam07416, Crinivirus_P26, Crinivirus P26 protein. This family
consists of several Crinivirus P26 proteins which seem
to be found exclusively in the Lettuce infectious
yellows virus. The function of this family is unknown.
Length = 227
Score = 29.2 bits (65), Expect = 0.41
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 51 DNGEGDYE---DMQELGTPFWCLLDIVPIKNEK 80
D DY+ D QEL FWCL+D + K+ K
Sbjct: 10 DESTCDYDKEIDHQELSDTFWCLMDFISSKHGK 42
>gnl|CDD|236636 PRK09950, PRK09950, putative transporter; Provisional.
Length = 506
Score = 29.0 bits (65), Expect = 0.59
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 31 VVLYLASHKDVTNTKMAQMADNGEGDYEDMQELGTPFWC-LLDIVPI 76
++++LASH D MA + + +D FWC ++ ++P+
Sbjct: 412 MIIFLASHMDAVAYTMAATSTRNLREGDDPDRGLRLFWCVVITLIPL 458
>gnl|CDD|237425 PRK13557, PRK13557, histidine kinase; Provisional.
Length = 540
Score = 28.9 bits (65), Expect = 0.62
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 8 NYRQR-TPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMA 50
NYR+ + FW L + P+ N+ ++V + S DV+ + A+ A
Sbjct: 110 NYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDA 153
Score = 27.7 bits (62), Expect = 1.4
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQMA 102
G+ FW L + P+ N+ ++V + S DV+ + A+ A
Sbjct: 115 GSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDA 153
>gnl|CDD|183542 PRK12465, PRK12465, xylose isomerase; Provisional.
Length = 445
Score = 28.5 bits (63), Expect = 0.71
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 40 DVTNTKMAQMADNGEGDYEDMQELGTPFWCLLDI 73
DV NT +A+ + +E +LG P++C DI
Sbjct: 78 DVGNTALARAEAKSDAAFEFFTKLGVPYYCFHDI 111
>gnl|CDD|225928 COG3393, COG3393, Predicted acetyltransferase [General function
prediction only].
Length = 268
Score = 27.8 bits (62), Expect = 1.2
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 11 QRTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKM---AQMADNGEGDYEDMQ 61
Q+ + C D + E+ + LA+ KD+ ++ A + D G D
Sbjct: 114 QKQLYVCEQDTAVRQVSPEELDVRLAAAKDMFIPEVGLRATLDDFGRADSRKEA 167
Score = 26.7 bits (59), Expect = 2.8
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 69 CLLDIVPIKNEKREVVLYLASHKDVTNTKM---AQMADNGEGDYEDMQ 113
C D + E+ + LA+ KD+ ++ A + D G D
Sbjct: 120 CEQDTAVRQVSPEELDVRLAAAKDMFIPEVGLRATLDDFGRADSRKEA 167
>gnl|CDD|232884 TIGR00229, sensory_box, PAS domain S-box. The PAS domain was
previously described. This sensory box, or S-box domain
occupies the central portion of the PAS domain but is
more widely distributed. It is often tandemly repeated.
Known prosthetic groups bound in the S-box domain
include heme in the oxygen sensor FixL, FAD in the redox
potential sensor NifL, and a 4-hydroxycinnamyl
chromophore in photoactive yellow protein. Proteins
containing the domain often contain other regulatory
domains such as response regulator or sensor histidine
kinase domains. Other S-box proteins include
phytochromes and the aryl hydrocarbon receptor nuclear
translocator [Regulatory functions, Small molecule
interactions].
Length = 124
Score = 26.9 bits (60), Expect = 1.6
Identities = 8/37 (21%), Positives = 16/37 (43%), Gaps = 1/37 (2%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 100
G+ W + + PI + + +D+T K A+
Sbjct: 86 GSEIWVEVSVSPI-RTNGGELGVVGIVRDITERKQAE 121
Score = 25.7 bits (57), Expect = 4.1
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 15 FWCLLDIVPIKNEKREVVLYLASHKDVTNTKMAQ 48
W + + PI + + +D+T K A+
Sbjct: 89 IWVEVSVSPI-RTNGGELGVVGIVRDITERKQAE 121
>gnl|CDD|237427 PRK13559, PRK13559, hypothetical protein; Provisional.
Length = 361
Score = 27.5 bits (61), Expect = 1.7
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 8 NYRQR-TPFWCLLDIVPIKNEKREVVLYLASHKDVTN 43
NYR+ PFW L + P+ E ++ + S DVT+
Sbjct: 123 NYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTD 159
Score = 26.7 bits (59), Expect = 3.0
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDVTN 95
G PFW L + P+ E ++ + S DVT+
Sbjct: 128 GEPFWNALHLGPVYGEDGRLLYFFGSQWDVTD 159
>gnl|CDD|185137 PRK15215, PRK15215, fimbriae biosynthesis regulatory protein;
Provisional.
Length = 100
Score = 26.5 bits (58), Expect = 2.0
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASH 90
FW L+ I I +EK ++ L +
Sbjct: 33 EEHFWLLIGISSIHSEK--IIQALRDY 57
Score = 26.1 bits (57), Expect = 2.7
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 15 FWCLLDIVPIKNEKREVVLYLASH 38
FW L+ I I +EK ++ L +
Sbjct: 36 FWLLIGISSIHSEK--IIQALRDY 57
>gnl|CDD|238075 cd00130, PAS, PAS domain; PAS motifs appear in archaea, eubacteria
and eukarya. Probably the most surprising identification
of a PAS domain was that in EAG-like K+-channels. PAS
domains have been found to bind ligands, and to act as
sensors for light and oxygen in signal transduction.
Length = 103
Score = 26.4 bits (58), Expect = 2.4
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 64 GTPFWCLLDIVPIKNEKREVVLYLASHKDV 93
G+ W L+ + PI++E EV+ L +D+
Sbjct: 74 GSVIWVLVSLTPIRDEGGEVIGLLGVVRDI 103
Score = 26.1 bits (57), Expect = 3.2
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 10 RQRTPFWCLLDIVPIKNEKREVVLYLASHKDV 41
+ + W L+ + PI++E EV+ L +D+
Sbjct: 72 KDGSVIWVLVSLTPIRDEGGEVIGLLGVVRDI 103
>gnl|CDD|146128 pfam03333, PapB, Adhesin biosynthesis transcription regulatory
protein. This family includes PapB, DaaA, FanA, FanB,
and AfaA.
Length = 91
Score = 25.7 bits (57), Expect = 3.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 15 FWCLLDIVPIKNEK 28
FW L++I I +EK
Sbjct: 28 FWLLIEISSIHSEK 41
Score = 25.7 bits (57), Expect = 3.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 67 FWCLLDIVPIKNEK 80
FW L++I I +EK
Sbjct: 28 FWLLIEISSIHSEK 41
>gnl|CDD|223647 COG0574, PpsA, Phosphoenolpyruvate synthase/pyruvate phosphate
dikinase [Carbohydrate transport and metabolism].
Length = 740
Score = 25.8 bits (57), Expect = 7.7
Identities = 9/32 (28%), Positives = 13/32 (40%), Gaps = 3/32 (9%)
Query: 45 KMAQMADNGEGDYEDMQELGTPFW---CLLDI 73
K+ AD EG ++E+ F L D
Sbjct: 251 KLIYDADKLEGHRARIEEIEDEFTDAFSLSDE 282
>gnl|CDD|185697 cd09020, D-hex-6-P-epi_like, D-hexose-6-phosphate epimerase-like.
D-Hexose-6-phosphate epimerase Ymr099c from
Saccharomyces cerevisiae belongs to the large
superfamily of aldose-1-epimerases. Its active site is
very similar to the catalytic site of galactose
mutarotase, the best studied member of the superfamily.
It also contains the conserved glutamate and histidine
residues that have been shown in galactose mutarotase to
be critical for catalysis, the glutamate serving as the
active site base to initiate the reaction by removing
the proton from the C-1 hydroxyl group of the sugar
substrate, and the histidine as the active site acid to
protonate the C-5 ring oxygen. In addition Ymr099c
contains 2 conserved arginine residues which are
involved in phosphate binding, and exhibits
hexose-6-phosphate mutarotase activity on glucose-6-P,
galactose-6-P and mannose-6-P.
Length = 269
Score = 25.3 bits (56), Expect = 9.2
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 45 KMAQMADNGEGDYEDM 60
K A+MAD + Y M
Sbjct: 227 KAARMADFPDDGYRRM 242
Score = 25.3 bits (56), Expect = 9.2
Identities = 7/16 (43%), Positives = 9/16 (56%)
Query: 97 KMAQMADNGEGDYEDM 112
K A+MAD + Y M
Sbjct: 227 KAARMADFPDDGYRRM 242
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
0.316 0.133 0.402
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,731,600
Number of extensions: 471286
Number of successful extensions: 356
Number of sequences better than 10.0: 1
Number of HSP's gapped: 356
Number of HSP's successfully gapped: 33
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.1 bits)