RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9670
(103 letters)
>gnl|CDD|220616 pfam10176, DUF2370, Protein of unknown function (DUF2370). This
family is conserved from fungi to humans. The human
member is annotated as a Golgi-associated protein-Nedd4
WW domain-binding protein but this could not be
confirmed.
Length = 212
Score = 113 bits (284), Expect = 5e-33
Identities = 39/118 (33%), Positives = 60/118 (50%), Gaps = 27/118 (22%)
Query: 8 VAFLFNWIGFLLIICFCHTVAARYGALSGFGVSLAKWTFIVRTS---------------- 51
V+FLF +IGFLL T AARYG+ +G G++L ++ I+R S
Sbjct: 95 VSFLFQFIGFLLTYLLHTTHAARYGSRAGLGLTLIQYGLIMRPSNGSSDKGPDRYEPSDP 154
Query: 52 -------TEVTSHEN---DWLWWLIMAFGCLICIRAFLQYVTIKRSWN-TLSEQAQER 98
+ +E+ WLWW++MAFG LI +R+ + Y+ ++R LS +ER
Sbjct: 155 NDFDFDPSSGDGYESGGQYWLWWILMAFGWLILLRSLVDYIRVRRMERLVLSAPDRER 212
>gnl|CDD|213542 TIGR00589, ogt, O-6-methylguanine DNA methyltransferase. All
proteins in this family for which functions are known
are involved alkyl-DNA transferases which remove alkyl
groups from DNA as part of alkylation DNA repair. Some
of the proteins in this family are also transcription
regulators and have a distinct transcription regulatory
domain. This family is based on the phylogenomic
analysis of JA Eisen (1999, Ph.D. Thesis, Stanford
University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 80
Score = 26.5 bits (59), Expect = 1.3
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 2/29 (6%)
Query: 18 LLIICFCHTVAARYGALSGF--GVSLAKW 44
L I+ CH V + G L G+ G+ L K+
Sbjct: 47 LPILVPCHRVVGKNGTLGGYSGGLELKKF 75
>gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. This model
describes the P-type ATPase subunit of the complex
responsible for translocating potassium ions across
biological membranes in microbes. In E. coli and other
species, this complex consists of the proteins KdpA,
KdpB, KdpC and KdpF. KdpB is the ATPase subunit, while
KdpA is the potassium-ion translocating subunit. The
function of KdpC is unclear, although cit has been
suggested to couple the ATPase subunit to the
ion-translocating subunit , while KdpF serves to
stabilize the complex. The potassium P-type ATPases
have been characterized as Type IA based on a
phylogenetic analysis which places this clade closest
to the heavy-metal translocating ATPases (Type IB).
Others place this clade closer to the Na+/K+ antiporter
type (Type IIC) based on physical characteristics. This
model is very clear-cut, with a strong break between
trusted hits and noise. All members of the seed
alignment, from Clostridium, Anabaena and E. coli are
in the characterized table. One sequence above trusted,
OMNI|NTL01TA01282, is apparently mis-annotated in the
primary literature, but properly annotated by TIGR
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 675
Score = 26.8 bits (59), Expect = 2.5
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 8/46 (17%)
Query: 7 PVAFLFNWIGFLLIICFCHTVAARYGALSG-----FGVSLAKWTFI 47
PV F+ W+G LL C T+A + G F + FI
Sbjct: 33 PVMFIV-WVGSLLTTCI--TIAPASFGMPGNNLALFNAIITGILFI 75
>gnl|CDD|185333 PRK15435, PRK15435, bifunctional DNA-binding transcriptional dual
regulator/O6-methylguanine-DNA methyltransferase;
Provisional.
Length = 353
Score = 26.3 bits (58), Expect = 3.5
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 18 LLIICFCHTVAARYGALSGF 37
L I+ CH V GALSG+
Sbjct: 315 LAIVIPCHRVVRGDGALSGY 334
>gnl|CDD|198369 cd07798, FGGY_AI-2K_like, Autoinducer-2 kinase-like proteins;
belongs to the FGGY family of carbohydrate kinases.
This subgroup consists of uncharacterized hypothetical
bacterial proteins with similarity to bacterial
autoinducer-2 (AI-2) kinases, which catalyzes the
phosphorylation of intracellular AI-2 to phospho-AI-2,
leading to the inactivation of lsrR, the repressor of
the lsr operon. Members of this subgroup belong to the
FGGY family of carbohydrate kinases, the monomers of
which contain two large domains, which are separated by
a deep cleft that forms the active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain.
Length = 437
Score = 25.7 bits (56), Expect = 6.2
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 43 KWTFIVRTSTEVTSHENDWLW 63
KW + R+ TEVT E D++
Sbjct: 376 KWNY--RSLTEVTGFEKDYVL 394
>gnl|CDD|233481 TIGR01582, FDH-beta, formate dehydrogenase, beta subunit, Fe-S
containing. This model represents the beta subunit of
the gamma-proteobacterial formate dehydrogenase. This
subunit contains four 4Fe-4S clusters and is involved
in transmitting electrons from the alpha subunit
(TIGR01553) at the periplasmic space to the gamma
subunit which spans the cytoplasmic membrane. In
addition to the gamma proteobacteria, a sequence from
Aquifex aolicus falls within the scope of this model.
This appears to be the case for the alpha, gamma and
epsilon (accessory protein TIGR01562) chains as well
[Energy metabolism, Anaerobic, Energy metabolism,
Electron transport].
Length = 283
Score = 25.3 bits (55), Expect = 7.4
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 45 TFIVRTSTEVTSHENDWLWWLIMAFGCLIC 74
TF + E E+D L WLI GC+ C
Sbjct: 69 TFTLMRFKEGE--ESDGLEWLIRKDGCMHC 96
>gnl|CDD|222802 PHA00497, pol, RNA-dependent RNA polymerase.
Length = 673
Score = 25.2 bits (55), Expect = 8.5
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 43 KWTFIVRTSTEVTSHENDWLWWLI 66
+W F +T+V+ H+ + WLI
Sbjct: 340 EWKFAE--ATDVSDHDTFFSGWLI 361
>gnl|CDD|218730 pfam05751, FixH, FixH. This family consists of several Rhizobium
FixH like proteins. It has been suggested that
suggested that the four proteins FixG, FixH, FixI, and
FixS may participate in a membrane-bound complex
coupling the FixI cation pump with a redox process
catalyzed by FixG.
Length = 146
Score = 24.9 bits (55), Expect = 8.7
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 61 WLWWLIMAFGCLICIRAFLQYVTIKRSWNTL 91
W W+LI FG +I + + Y+ + +++ L
Sbjct: 4 WGWFLIALFGVVIVVNLTMVYLAV-STFDGL 33
>gnl|CDD|222217 pfam13552, DUF4127, Protein of unknown function (DUF4127). This
family of uncharacterized bacterial proteins are about
500 amino acids in length.
Length = 495
Score = 24.9 bits (55), Expect = 9.8
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 4/30 (13%)
Query: 47 IVRTSTEVTSHENDWLW----WLIMAFGCL 72
I+RT +S E + I + L
Sbjct: 112 IMRTPIYNSSDEEPDYYEEYGRKIFRYSAL 141
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
0.337 0.143 0.523
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,288,926
Number of extensions: 432571
Number of successful extensions: 1024
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1016
Number of HSP's successfully gapped: 63
Length of query: 103
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 34
Effective length of database: 7,877,176
Effective search space: 267823984
Effective search space used: 267823984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.8 bits)
S2: 53 (24.2 bits)