RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6223
(107 letters)
>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding. This family
is found in mammals where it is localised at cell-cell
adherens junctions, and in Sch. pombe and other fungi
where it anchors spindle-pole bodies to spindle
microtubules. It is a coiled-coil structure, and in
pombe, it is required for anchoring the minus end of
spindle microtubules to the centrosome equivalent, the
spindle-pole body. The name ADIP derives from the family
being composed of Afadin- and alpha -Actinin-Binding
Proteins Localised at Cell-Cell Adherens Junctions.
Length = 149
Score = 30.0 bits (68), Expect = 0.12
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 1 ASSSNEAVHLQQRLRSLSTELVTLRNKLH 29
E LQ + R L +L TL KL
Sbjct: 81 EDLERELALLQAKERQLEKKLKTLEQKLK 109
>gnl|CDD|163064 TIGR02894, DNA_bind_RsfA, transcription factor, RsfA family. In a
subset of endospore-forming members of the Firmcutes,
members of this protein family are found, several to a
genome. Two very strongly conserved sequences regions
are separated by a highly variable linker region. Much
of the linker region was excised from the seed alignment
for this model. A characterized member is the
prespore-specific transcription RsfA from Bacillus
subtilis, previously called YwfN, which is controlled by
sigma factor F and seems to fine-tune expression of some
genes in the sigma-F regulon. A paralog in Bacillus
subtilis is designated YlbO [Regulatory functions, DNA
interactions, Cellular processes, Sporulation and
germination].
Length = 161
Score = 29.3 bits (66), Expect = 0.21
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 5 NEAVHLQQRLRSLSTELVTLRNKLHV 30
N+ LQ+R L EL LR +L
Sbjct: 111 NQNESLQKRNEELEKELEKLRQRLST 136
>gnl|CDD|183147 PRK11465, PRK11465, putative mechanosensitive channel protein;
Provisional.
Length = 741
Score = 28.6 bits (64), Expect = 0.63
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 8/47 (17%)
Query: 35 TAPPIKPSLPPVAPGNTG-----PAPLLYKPIPQHQKAANIVVADVL 76
AP S+P V + PAP +P + +KAA +ADVL
Sbjct: 13 GAPAHAVSIPGVTTTTSTDSTTEPAP---EPDIEQKKAAYAALADVL 56
>gnl|CDD|220422 pfam09818, ABC_ATPase, Predicted ATPase of the ABC class. Members
of this family include various bacterial predicted ABC
class ATPases.
Length = 447
Score = 28.3 bits (64), Expect = 0.71
Identities = 14/66 (21%), Positives = 20/66 (30%), Gaps = 2/66 (3%)
Query: 29 HVQAPPTAPPIKPSLPPVAPGNTGPAPLLYKPIPQHQKAANIVVADVLSEKCPPVPAVGG 88
HVQ P APP + + PG P + AA + + G
Sbjct: 37 HVQGDPFAPPSRVRV--RVPGAAAGFPEELLSSKDRRVAAEDYLLRRFAALLECTVRRKG 94
Query: 89 GGSTPH 94
G +
Sbjct: 95 SGKSGL 100
>gnl|CDD|184256 PRK13700, PRK13700, conjugal transfer protein TraD; Provisional.
Length = 732
Score = 27.2 bits (60), Expect = 2.0
Identities = 17/76 (22%), Positives = 27/76 (35%), Gaps = 9/76 (11%)
Query: 40 KPSLPPVAPG----NTGPAPLLYKPIP-----QHQKAANIVVADVLSEKCPPVPAVGGGG 90
+P +P VA G +P Q Q+ + V+ D S+ VPA G
Sbjct: 604 EPDVPEVASGEDVTQAEQPQQPQQPQQPQQPQQPQQPVSPVINDKKSDAGVNVPAGGIEQ 663
Query: 91 STPHSPGDAGSKPVTP 106
P + + + P
Sbjct: 664 ELKMKPEEEMEQQLPP 679
>gnl|CDD|237865 PRK14951, PRK14951, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 618
Score = 26.6 bits (59), Expect = 2.6
Identities = 12/76 (15%), Positives = 15/76 (19%), Gaps = 4/76 (5%)
Query: 32 APPTAPPIKPSLPPVAPGNTGPAPLLYKPIPQHQKAANIVVADVLSEKCPPVPAVGGGGS 91
A P A + A PA A A A +
Sbjct: 382 ARPEAAAPAAAPVAQAAAAPAPAA----APAAAASAPAAPPAAAPPAPVAAPAAAAPAAA 437
Query: 92 TPHSPGDAGSKPVTPV 107
+P P P
Sbjct: 438 PAAAPAAVALAPAPPA 453
Score = 25.1 bits (55), Expect = 8.7
Identities = 15/56 (26%), Positives = 18/56 (32%)
Query: 30 VQAPPTAPPIKPSLPPVAPGNTGPAPLLYKPIPQHQKAANIVVADVLSEKCPPVPA 85
APP + P A PA + P P Q A V V P V +
Sbjct: 419 AAAPPAPVAAPAAAAPAAAPAAAPAAVALAPAPPAQAAPETVAIPVRVAPEPAVAS 474
>gnl|CDD|227687 COG5400, COG5400, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 205
Score = 25.9 bits (57), Expect = 4.2
Identities = 5/26 (19%), Positives = 6/26 (23%)
Query: 31 QAPPTAPPIKPSLPPVAPGNTGPAPL 56
P + V P T A
Sbjct: 3 ILSMAQPITDTNAIRVRPQETFVALE 28
>gnl|CDD|201077 pfam00201, UDPGT, UDP-glucoronosyl and UDP-glucosyl transferase.
Length = 500
Score = 25.8 bits (57), Expect = 4.8
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 48 PGNTGPAPLLYKPIPQ 63
P G L K +PQ
Sbjct: 318 PSTLGRNTRLVKWLPQ 333
>gnl|CDD|221380 pfam12017, Tnp_P_element, Transposase protein. Protein in this
family are transposases found in insects. This region
is about 230 amino acids in length and is found
associated with pfam05485.
Length = 236
Score = 25.6 bits (56), Expect = 5.1
Identities = 9/27 (33%), Positives = 18/27 (66%)
Query: 2 SSSNEAVHLQQRLRSLSTELVTLRNKL 28
++ E L+Q++R+L E+ +LR +L
Sbjct: 15 TTLMENKSLRQKIRALEKEMHSLRQQL 41
>gnl|CDD|115307 pfam06637, PV-1, PV-1 protein (PLVAP). This family consists of
several PV-1 (PLVAP) proteins which seem to be specific
to mammals. PV-1 is a novel protein component of the
endothelial fenestral and stomatal diaphragms. The
function of this family is unknown.
Length = 442
Score = 25.8 bits (56), Expect = 6.5
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 11/59 (18%)
Query: 9 HLQQRLRSLSTELVTLRNKLHV-----------QAPPTAPPIKPSLPPVAPGNTGPAPL 56
+L + L + E LR +L + ++ P PP +P PP P PA L
Sbjct: 360 NLAKELEAKKREAEQLRMELAIRISALDTCIKAKSLPAMPPSRPMGPPPNPPPIDPASL 418
>gnl|CDD|132813 cd07280, PX_YPT35, The phosphoinositide binding Phox Homology
domain of the fungal protein YPT35. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions such as cell signaling,
vesicular trafficking, protein sorting, and lipid
modification, among others. This subfamily is composed
of YPT35 proteins from the fungal subkingdom Dikarya.
The PX domain is involved in targeting of proteins to
PI-enriched membranes, and may also be involved in
protein-protein interaction. The PX domain of YPT35
binds to phosphatidylinositol 3-phosphate (PI3P). It
also serves as a protein interaction domain, binding to
members of the Yip1p protein family, which localize to
the ER and Golgi. YPT35 is mainly associated with
endosomes and together with Yip1p proteins, may be
involved in a specific function in the endocytic
pathway.
Length = 120
Score = 24.6 bits (54), Expect = 8.8
Identities = 11/31 (35%), Positives = 13/31 (41%)
Query: 19 TELVTLRNKLHVQAPPTAPPIKPSLPPVAPG 49
+E V LR L + P P LPP P
Sbjct: 46 SEFVQLREALLDEFPRHKRNEIPQLPPKVPW 76
>gnl|CDD|131813 TIGR02766, crypt_chrom_pln, cryptochrome, plant family. At least
five major families of cryptochomes and photolyases
share FAD cofactor binding, sequence homology, and the
ability to react to short wavelengths of visible light.
Photolysases are responsible for light-dependent DNA
repair by removal of two types of uv-induced DNA
dimerizations. Cryptochromes have other functions,
often regulatory and often largely unknown, which may
include circadian clock entrainment and control of
development. Members of this subfamily are known so far
only in plants; they may show some photolyase activity
in vitro but appear mostly to be regulatory proteins
that respond to blue light.
Length = 475
Score = 25.2 bits (55), Expect = 8.8
Identities = 14/29 (48%), Positives = 16/29 (55%)
Query: 4 SNEAVHLQQRLRSLSTELVTLRNKLHVQA 32
HL Q LRSL T LVT+R+ V A
Sbjct: 50 KQSLAHLDQSLRSLGTCLVTIRSTDTVAA 78
>gnl|CDD|211989 TIGR04266, NDMA_methanol, NDMA-dependent methanol dehydrogenase.
Members of this family belong to the iron-dependent
alcohol dehydrogenase family (see pfam00465). The
NADP(H) cofactor is bound too tightly for exchange
(although non-convalently), so enzymatic activity
depends on a second substrate or electron carrier. The
radical SAM-modified natural product mycofactocin is
proposed to fill this role.
Length = 420
Score = 25.0 bits (54), Expect = 9.1
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 56 LLYKPIPQHQKAANIVVADVL--SEKCPPVPAVGGGGSTPHSPG 97
+LY + + K N++ A L SEKC + ++GGG S + G
Sbjct: 69 VLYDKVESNPKDYNVMEAAALYQSEKCDSIISIGGGSSHDAAKG 112
>gnl|CDD|218545 pfam05300, DUF737, Protein of unknown function (DUF737). This
family consists of several uncharacterized mammalian
proteins of unknown function.
Length = 187
Score = 24.8 bits (54), Expect = 9.6
Identities = 10/36 (27%), Positives = 14/36 (38%)
Query: 34 PTAPPIKPSLPPVAPGNTGPAPLLYKPIPQHQKAAN 69
P+ P KP P ++ P L + I K A
Sbjct: 26 PSQPSSKPQPSPGFGPSSVPESELRRLIAGELKGAL 61
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
0.310 0.130 0.388
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,431,507
Number of extensions: 451384
Number of successful extensions: 709
Number of sequences better than 10.0: 1
Number of HSP's gapped: 642
Number of HSP's successfully gapped: 101
Length of query: 107
Length of database: 10,937,602
Length adjustment: 72
Effective length of query: 35
Effective length of database: 7,744,114
Effective search space: 271043990
Effective search space used: 271043990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.4 bits)