RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16569
(385 letters)
>gnl|CDD|216082 pfam00723, Glyco_hydro_15, Glycosyl hydrolases family 15. In
higher organisms this family is represented by
phosphorylase kinase subunits.
Length = 416
Score = 57.8 bits (140), Expect = 3e-09
Identities = 14/69 (20%), Positives = 23/69 (33%)
Query: 57 LAVGVIGQKETVFDKPLSPSEIRSVIYSTIQPYDVIQAVLQQEIVLYCGRLIATSPDMFN 116
VG T PL+ E ++ Y +L +E+ Y G + P F+
Sbjct: 348 STVGTPYSSSTFISIPLAVKEYADGFVKAVEEYANSLGLLSEEVDRYTGEQLGAFPLTFS 407
Query: 117 GILKIRVGW 125
+R
Sbjct: 408 HAALLRAAL 416
>gnl|CDD|131612 TIGR02561, HrpB1_HrpK, type III secretion protein HrpB1/HrpK. This
gene is found within type III secretion operons in a
limited range of species including Xanthomonas,
Ralstonia and Burkholderia.
Length = 153
Score = 31.0 bits (70), Expect = 0.55
Identities = 34/119 (28%), Positives = 46/119 (38%), Gaps = 22/119 (18%)
Query: 77 EIRSVIYSTIQPYDVIQAVLQQEIVLYCGRLIATSPDMFNGILKIRVGWVIEAIKVYLEI 136
E+ + PYD QA+L VL R DMF+G L I G EA ++ E+
Sbjct: 15 EVLMYALRSADPYD-AQAMLDALRVL---RPNLKELDMFDGWLLIARGNYDEAARILREL 70
Query: 137 IGKDVNAMYNYSPFEIRQLLWKVLNVR---EW---ADE------EHLTVLQLRRLEGCW 183
+ Y + LL LN + EW ADE + V +R L G
Sbjct: 71 LSSAGAPPYG------KALLALCLNAKGDAEWHVHADEVLARDADADAVALVRALLGAQ 123
>gnl|CDD|132588 TIGR03549, TIGR03549, YcaO domain protein. This family consists of
remarkably well-conserved proteins from gamma and beta
Proteobacteria, heavily skewed towards organisms of
marine environments. Its gene neighborhood is not
conserved. This family has an OsmC-like N-terminal
domain. It shares a YcaO domain, frequently associated
with ATP-dependent cyclodehydration for peptide
modification. The function is unknown. Fifteen of the
first sixteen members of this family are from
selenouridine-positive genomes, but this correlation may
not be meaningful.
Length = 718
Score = 30.6 bits (69), Expect = 1.8
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 14/89 (15%)
Query: 187 PSHFYNQVWDIMIRTPEGISVQGH--IL--PQQPTLSNMTQSELTFALVAVWDI------ 236
P YNQ++ I + PE IS + IL + T+ + Q+ F + V ++
Sbjct: 78 PEDRYNQIFKIQVELPEDISEKDRQGILRSIDRCTVKKVVQTGPEFQIETVENLDADAQA 137
Query: 237 --MIRTPEGIS--VQGHILPQQPTLSNMT 261
M G S ++G LP + T++NMT
Sbjct: 138 LLMGTPDSGASTYIEGKDLPLEQTIANMT 166
>gnl|CDD|215277 PLN02501, PLN02501, digalactosyldiacylglycerol synthase.
Length = 794
Score = 29.2 bits (65), Expect = 4.7
Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 12/82 (14%)
Query: 306 FRKQLDLDELVNNAYHMFCKDNNIERKDMKSFYAAK-----QSITTGYLARAVVNNVLKG 360
F + DLD+++NN D + + KS + + G LA A + L G
Sbjct: 703 FMEYSDLDKVLNNG-----DDAKLSKSGGKSITKSVSMPNLSEMVDGGLAFA--HYCLTG 755
Query: 361 GELATSCLDSIDGTHEDDLQHC 382
E C +I GT + D QHC
Sbjct: 756 NEFLRLCTGAIPGTRDYDKQHC 777
>gnl|CDD|214750 smart00633, Glyco_10, Glycosyl hydrolase family 10.
Length = 263
Score = 28.7 bits (65), Expect = 4.9
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 243 GISVQGHILPQQPTLSNMTQSELTFALLIEEILNHIT 279
GI +Q H+ P ++ + + FA L EI IT
Sbjct: 158 GIGLQSHLSLGGPNIAEIRAALDRFASLGLEI--WIT 192
>gnl|CDD|227303 COG4968, PilE, Tfp pilus assembly protein PilE [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 139
Score = 27.8 bits (62), Expect = 5.9
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 260 MTQSELTFALLIEEILNHITYPEYRQIIVE 289
T EL + I IL I YP Y+ ++
Sbjct: 8 FTLIELMIVVAIVGILALIAYPSYQNYVLR 37
>gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase
subunit beta/beta'; Reviewed.
Length = 2890
Score = 28.7 bits (64), Expect = 6.7
Identities = 16/70 (22%), Positives = 38/70 (54%), Gaps = 5/70 (7%)
Query: 26 LVKVYQHLG-VNKKLKLSGRPPRPIGALGTSKLAVGVIGQKETVFDKPLSPSEIRSVIYS 84
L+K+ + G ++ + L R R +G L ++L G++ ++T+ DK + S +
Sbjct: 444 LMKIKNNQGKIDDRDHLGNRRIRAVGELLANELHSGLVKMQKTIKDKLTTM----SGAFD 499
Query: 85 TIQPYDVIQA 94
++ P+D++ +
Sbjct: 500 SLMPHDLVNS 509
>gnl|CDD|188677 cd08722, RGS_SNX14, Regulator of G protein signaling (RGS) domain
found in the Sorting Nexin14 (SNX14) protein. The RGS
(Regulator of G-protein Signaling) domain is an
essential part of the SNX14 (Sorting Nexin14) protein, a
member of the RGS protein family. They are a diverse
group of multifunctional proteins that regulate cellular
signaling events downstream of G-protein coupled
receptors (GPCRs). RGS proteins regulate many aspects of
embryonic development such as glial differentiation,
embryonic axis formation, skeletal and muscle
development, cell migration during early embryogenesis,
as well as apoptosis, cell proliferation, and modulation
of cardiac development. SNX14 is believed to regulates
membrane trafficking in motor neurons.
Length = 127
Score = 27.3 bits (61), Expect = 7.5
Identities = 6/31 (19%), Positives = 13/31 (41%)
Query: 301 NPELSFRKQLDLDELVNNAYHMFCKDNNIER 331
NP+L+ ++ L + Y + +R
Sbjct: 39 NPDLTDEEKQSLHKEAQEIYKTYFLPEAPDR 69
>gnl|CDD|176470 cd01598, PurB, PurB_like adenylosuccinases (adenylsuccinate lyase,
ASL). This subgroup contains EcASL, the product of the
purB gene in Escherichia coli, and related proteins. It
is a member of the Lyase class I family of the Lyase_I
superfamily. Members of the Lyase class I family
function as homotetramers to catalyze similar
beta-elimination reactions in which a Calpha-N or
Calpha-O bond is cleaved with the subsequent release of
fumarate as one of the products. The four active sites
of the homotetrameric enzyme are each formed by residues
from three different subunits. ASL catalyzes two
non-sequential steps in the de novo purine biosynthesis
pathway: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and; the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP).
Length = 425
Score = 28.4 bits (64), Expect = 7.8
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 265 LTFALLIEEILNHITYPEYRQIIVELLSI 293
L +AL+I+E N + P ++II L +
Sbjct: 107 LAYALMIKEARNEVILPLLKEIIDSLKKL 135
>gnl|CDD|219383 pfam07348, Syd, Syd protein (SUKH-2). This family contains a
number of bacterial Syd proteins approximately 180
residues long. It has been suggested that Syd is loosely
associated with the cytoplasmic surface of the
cytoplasmic membrane, and that interaction with SecY may
be involved in this membrane association. Operon
analysis showed that Syd protein may function as
immunity protein in bacterial toxin systems.
Length = 176
Score = 27.5 bits (62), Expect = 8.3
Identities = 11/45 (24%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 13 HEVEPVQIWSSNELVKVYQ----HLGVNKKLKLSGRPPRPIGALG 53
E+E +Q+W+ + ++ + HL + ++LK P IG
Sbjct: 93 GEIELLQVWNEEDFERLQENLIGHLLMKRRLKQP--PTLFIGTTD 135
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
0.321 0.137 0.410
Gapped
Lambda K H
0.267 0.0769 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,853,260
Number of extensions: 1954999
Number of successful extensions: 1514
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1513
Number of HSP's successfully gapped: 18
Length of query: 385
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 286
Effective length of database: 6,546,556
Effective search space: 1872315016
Effective search space used: 1872315016
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 (21.8 bits)
S2: 60 (26.8 bits)