RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6951
(72 letters)
>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain. The CH domain is
found in both cytoskeletal proteins and signal
transduction proteins. The CH domain is involved in
actin binding in some members of the family. However in
calponins there is evidence that the CH domain is not
involved in its actin binding activity. Most member
proteins have from two to four copies of the CH domain,
however some proteins such as calponin have only a
single copy.
Length = 104
Score = 45.0 bits (107), Expect = 6e-08
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 13 NIYSNNELAFRTAERHLGIPALLDARESVLDAEDMVEYAVPDRLSILTYLSQFYQVF 69
+ N LA AE+ LG+P VL+ ED+VE + +LT L+Q ++ F
Sbjct: 56 DKLENLNLALEFAEKKLGVP-------KVLEPEDLVE--DGNEKLVLTLLAQLFRRF 103
>gnl|CDD|227401 COG5069, SAC6, Ca2+-binding actin-bundling protein fimbrin/plastin
(EF-Hand superfamily) [Cytoskeleton].
Length = 612
Score = 38.8 bits (90), Expect = 5e-05
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 17 NNELAFRTAERHLGIPALLDARESVLDAEDMVEYAVPDRLSILTYLSQFYQVF 69
NN AF A + +GI L+ ED+V ++PD SI+TY+S + F
Sbjct: 187 NNFQAFENANKVIGIARLIGV-------EDIVNVSIPDERSIMTYVSWYIIRF 232
>gnl|CDD|237981 cd00014, CH, Calponin homology domain; actin-binding domain which
may be present as a single copy or in tandem repeats
(which increases binding affinity). The CH domain is
found in cytoskeletal and signal transduction proteins,
including actin-binding proteins like spectrin,
alpha-actinin, dystrophin, utrophin, and fimbrin,
proteins essential for regulation of cell shape
(cortexillins), and signaling proteins (Vav).
Length = 107
Score = 36.5 bits (85), Expect = 1e-04
Identities = 20/67 (29%), Positives = 25/67 (37%), Gaps = 9/67 (13%)
Query: 3 KDDFASLDQRNIYSNNELAFRTAERHLGIPALLDARESVLDAEDMVEYAVPDRLSILTYL 62
K L + N LA AE LG+P DAED+VE D +L L
Sbjct: 49 KKKINPLSRFKRLENINLALNFAE-KLGVP------VVNFDAEDLVED--GDEKLVLGLL 99
Query: 63 SQFYQVF 69
+ F
Sbjct: 100 WSLIRKF 106
>gnl|CDD|240357 PTZ00317, PTZ00317, NADP-dependent malic enzyme; Provisional.
Length = 559
Score = 30.7 bits (70), Expect = 0.034
Identities = 14/34 (41%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 11 QRNIYSNNELAFRTAER-HLGIPALLDARESVLD 43
RN + N AF ER HLGI LL L+
Sbjct: 23 LRNRFLNKGTAFTAEEREHLGIEGLLPPTVETLE 56
>gnl|CDD|233382 TIGR01372, soxA, sarcosine oxidase, alpha subunit family,
heterotetrameric form. This model describes the alpha
subunit of a family of known and putative
heterotetrameric sarcosine oxidases. Five operons of
such oxidases are found in Mesorhizobium loti and three
in Agrobacterium tumefaciens, a high enough copy number
to suggest that not all members are share the same
function. The model is designated as subfamily rather
than equivalog for this reason.Sarcosine oxidase
catalyzes the oxidative demethylation of sarcosine to
glycine. The reaction converts tetrahydrofolate to
5,10-methylene-tetrahydrofolate. The enzyme is known in
monomeric and heterotetrameric (alpha,beta,gamma,delta)
forms [Energy metabolism, Amino acids and amines].
Length = 985
Score = 27.0 bits (60), Expect = 0.85
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 14 IYSNNELAFRTA----ERHLGIPALLDARESVLDAEDMVEYAVPDRLSILT 60
+ +NN+ A+R A + + A++DAR V A + +LT
Sbjct: 322 VATNNDSAYRAAADLLAAGIAVVAIIDARADVSPE--ARAEARELGIEVLT 370
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 26.0 bits (58), Expect = 1.5
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 10/58 (17%)
Query: 5 DFASLDQRNIYSNNELAFRTAERHLGIPALLDARESVLDAEDMV-----EYAVPDRLS 57
DF L R +Y N L R + P + R V + D+V A+P +LS
Sbjct: 87 DFRLLPDRTVYENVALPLRVIGKP---PR--EIRRRVSEVLDLVGLKHKARALPSQLS 139
>gnl|CDD|227914 COG5627, MMS21, DNA repair protein MMS21 [DNA replication,
recombination, and repair].
Length = 275
Score = 25.8 bits (56), Expect = 1.8
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 15 YSNNELAFRTAERHLGIPALLDARESVL 42
Y+ N L TAER +GI + + VL
Sbjct: 45 YTLNALFDVTAERPIGIQESITDVDHVL 72
>gnl|CDD|234012 TIGR02784, addA_alphas, double-strand break repair helicase AddA,
alphaproteobacterial type. AddAB, also called RexAB,
substitutes for RecBCD in several bacterial lineages.
These DNA recombination proteins act before synapse and
are particularly important for DNA repair of
double-stranded breaks by homologous recombination. The
term AddAB is used broadly, with AddA homologous between
the alphaproteobacteria (as modeled here) and the
Firmicutes, while the partner AddB proteins show no
strong homology across the two groups of species [DNA
metabolism, DNA replication, recombination, and repair].
Length = 1135
Score = 25.4 bits (56), Expect = 2.6
Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 7 ASLDQRN---IYSNNELAFRTAERHLGIPALLDARESVLDAEDMVEYAV 52
A ++ + A R A R L A L +LD D++E V
Sbjct: 323 ALRERLRALRMAQRTLAALRLAARLLQRYARLKKARGLLDFNDLIERTV 371
>gnl|CDD|235312 PRK04792, tolB, translocation protein TolB; Provisional.
Length = 448
Score = 25.0 bits (55), Expect = 3.8
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 34 LLDARESVLDAEDMVEYAVPDRLSILTY 61
+LD+R +V+ A +YA R+S + Y
Sbjct: 146 VLDSRVAVISAAQFRQYA--HRISDIVY 171
>gnl|CDD|225098 COG2187, COG2187, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 337
Score = 24.7 bits (54), Expect = 4.2
Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 5/53 (9%)
Query: 5 DFASLDQRNIYSNNELAFR---TAERHLGIPALLDARES--VLDAEDMVEYAV 52
DF++L++R EL + +L + + + + + VEY +
Sbjct: 52 DFSTLEKRRHACEEELELNSRLAPDLYLEVLPISRVADGWLIGGDGEAVEYVL 104
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein
which is localized in the photoreceptor outer segment
discs. Mutation/s in its genetic loci is implicated in
the recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 24.6 bits (53), Expect = 5.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 4 DDFASLDQRNIYSNNELAFRTAERHLGIPALLDARESVLDAEDMVEYAV 52
DD + D R+I++ + R A ++L +LD ES D + + A+
Sbjct: 492 DDMTNFDWRDIFNITDRFLRLANQYLEC-LVLDKFESYDDEVQLTQRAL 539
>gnl|CDD|148771 pfam07351, DUF1480, Protein of unknown function (DUF1480). This
family consists of several hypothetical Enterobacterial
proteins of around 80 residues in length. The function
of this family is unknown.
Length = 80
Score = 24.0 bits (52), Expect = 5.5
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 28 HLGIPALLDARESVL 42
H IPALLD + S+L
Sbjct: 49 HTSIPALLDGKHSLL 63
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 0.136 0.383
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,694,808
Number of extensions: 285030
Number of successful extensions: 248
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 14
Length of query: 72
Length of database: 10,937,602
Length adjustment: 42
Effective length of query: 30
Effective length of database: 9,074,734
Effective search space: 272242020
Effective search space used: 272242020
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: 53 (24.2 bits)