RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5178
(219 letters)
>gnl|CDD|216334 pfam01153, Glypican, Glypican.
Length = 559
Score = 115 bits (289), Expect = 1e-29
Identities = 62/174 (35%), Positives = 91/174 (52%), Gaps = 21/174 (12%)
Query: 3 ESLRICTSRLSCCSQEHEISVHNVIRQSYDKHLRQTLYSLSSILKSRAHRFDALSTMCGH 62
E LRIC +CC+ E E + R +++ L+++ SL +L S A +FD
Sbjct: 51 EHLRICPQGYTCCTSEMEERLSLQSRVDFEQLLQESSSSLQGLLTSNARKFDE------- 103
Query: 63 SFRELRRSLPGFFKELLSTSKKSFHDMFKRTYGIIYEQNSFLFTDLFEELEKYFSRGNVD 122
FF ELL S+ S +DMF +TYG +Y QNS LF DLF EL Y+ +V+
Sbjct: 104 -----------FFLELLRNSENSLNDMFVKTYGRLYPQNSELFNDLFTELRLYYVGSSVN 152
Query: 123 LIEVMDNFFSTLYQKMFTVLNAQYTFDDKISTLYQKIFTVLNAQYTFDDNPRQL 176
L E+++ F++ L ++MF ++N QY+F D K L F D PR+L
Sbjct: 153 LEEMLNEFWARLLERMFRLVNPQYSFSDDYLECLSKATEQLKP---FGDIPRKL 203
>gnl|CDD|240983 cd12539, RRM_U2AF35B, RNA recognition motif in splicing factor U2AF
35 kDa subunit B (U2AF35B). This subgroup corresponds
to the RRM of U2AF35B, also termed zinc finger CCCH
domain-containing protein 60 (C3H60), which is one of
the small subunits of U2 small nuclear ribonucleoprotein
(snRNP) auxiliary factor (U2AF). It has been implicated
in the recruitment of U2 snRNP to pre-mRNAs and is a
highly conserved heterodimer composed of large and small
subunits. Members in this family are mainly found in
plant. They show high sequence homology to vertebrates
U2AF35 that directly binds to the 3' splice site of the
conserved AG dinucleotide and performs multiple
functions in the splicing process in a
substrate-specific manner. U2AF35B contains two
N-terminal zinc fingers, a central RNA recognition motif
(RRM), also termed RBD (RNA binding domain) or RNP
(ribonucleoprotein domain), and a C-terminal
arginine/serine (SR)-rich domain. In contrast to U2AF35,
U2AF35B has a plant-specific conserved C-terminal region
containing SERE motif(s), which may have an important
function specific to higher plants. .
Length = 103
Score = 29.3 bits (66), Expect = 0.61
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 105 FTDLFEELEKYFSRGNVDLIEVMDNF 130
+ D+FEEL K+ G V+ + V DN
Sbjct: 40 YEDIFEELSKF---GEVEALNVCDNL 62
>gnl|CDD|236299 PRK08575, PRK08575,
5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase; Provisional.
Length = 326
Score = 30.5 bits (69), Expect = 0.68
Identities = 25/109 (22%), Positives = 41/109 (37%), Gaps = 23/109 (21%)
Query: 65 RELRRSLPGFFKELLSTSKKSFHDMFKRTYGIIYEQNSFLFTDLFEELEKYFS----RGN 120
R+ LP +K + H M TY I + L+ FS
Sbjct: 191 RDTLEKLPEVYKTMAKNVNIEKHLM---TYFEINN---------LKRLDILFSLPVTYFG 238
Query: 121 VDLIEVMDNFFSTLYQKM------FTVLNAQYTFDDKISTLYQKIFTVL 163
+D+IE + +Y + +LNA+ T +KIST+ + + V
Sbjct: 239 IDVIENLKKLGR-VYTYLKGRKVYLGILNARNTKMEKISTIRRIVNKVK 286
>gnl|CDD|217140 pfam02608, Bmp, Basic membrane protein. This is a family of basic
membrane lipoproteins form Borrelia and various putative
lipoproteins form other bacteria. All of these proteins
are outer membrane proteins and are thus antigenic in
nature when possessed by the pathogenic members of the
family.
Length = 305
Score = 28.9 bits (65), Expect = 2.1
Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 17/85 (20%)
Query: 84 KSFHDM-------FKRTYGI--IYEQNSFLFTDLFEELEKYFSRGNVDLI-----EVMDN 129
KSF+ FK+ + I IY+++S + +E L K + DLI + D
Sbjct: 15 KSFNQSAYEGIRRFKKEFNIELIYKESSQNTDEDYEALLKLLADQGYDLIVLTGFRLQDA 74
Query: 130 FFSTLYQ--KM-FTVLNAQYTFDDK 151
F +++A D K
Sbjct: 75 LIEVSSDFPDTKFLIIDAVVKKDRK 99
>gnl|CDD|235378 PRK05256, PRK05256, condesin subunit E; Provisional.
Length = 238
Score = 28.0 bits (63), Expect = 3.1
Identities = 14/33 (42%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 99 EQNSFLFTDLFEELEKYFSRGNVDLIEVMDNFF 131
+ ++FL D EELE+++ R NV+LI + FF
Sbjct: 42 DNHAFL-MDFQEELEEFYRRYNVELIRAPEGFF 73
>gnl|CDD|180169 PRK05625, PRK05625, 5-amino-6-(5-phosphoribosylamino)uracil
reductase; Validated.
Length = 217
Score = 27.9 bits (63), Expect = 3.4
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 137 KMFTVLNAQYTFDDKISTL--YQKI 159
+ + ++NA + D K++T Y +I
Sbjct: 2 RPYVIVNAAMSADGKLATKTRYSRI 26
>gnl|CDD|182747 PRK10807, PRK10807, paraquat-inducible protein B; Provisional.
Length = 547
Score = 28.1 bits (63), Expect = 4.0
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 29 QSYDKHLRQTLYSLSSILKSRAHRFDALSTMCGHSFRELRRSLPGF 74
Q + L+ TL SL+ I S++ L + REL RS+ GF
Sbjct: 449 QRTMRELQTTLDSLNKITSSQS--MQQLPADMQKTLRELNRSMQGF 492
>gnl|CDD|236686 PRK10416, PRK10416, signal recognition particle-docking protein
FtsY; Provisional.
Length = 318
Score = 27.8 bits (63), Expect = 4.7
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 10/50 (20%)
Query: 74 FFKELLSTSKKSFHDMFK----RTYGIIYEQNSFLFT------DLFEELE 113
+ K+ K+ + + K +T E + LF DL EELE
Sbjct: 4 WLKKKKKEKKEGWFERLKKGLSKTRENFGEGINGLFAKKKIDEDLLEELE 53
>gnl|CDD|225985 COG3454, COG3454, Metal-dependent hydrolase involved in phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 377
Score = 27.7 bits (62), Expect = 5.6
Identities = 6/24 (25%), Positives = 7/24 (29%)
Query: 105 FTDLFEELEKYFSRGNVDLIEVMD 128
E V LI +MD
Sbjct: 141 HPATLPLFEDLMDHPRVKLISLMD 164
>gnl|CDD|236188 PRK08210, PRK08210, aspartate kinase I; Reviewed.
Length = 403
Score = 27.5 bits (62), Expect = 5.6
Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 18/79 (22%)
Query: 96 IIYEQNSF-LFTDLFEEL-EKYFSRGNVDLIEVMDNFFSTLYQKMFTVLNAQYTFDDKIS 153
+ ++N++ L ++F+ L E S VD I N F T + +FTV D+ S
Sbjct: 276 VKAKENAYDLQQEVFKALAEAGIS---VDFI----NIFPT--EVVFTV-------SDEDS 319
Query: 154 TLYQKIFTVLNAQYTFDDN 172
++I L + + +N
Sbjct: 320 EKAKEILENLGLKPSVREN 338
>gnl|CDD|237967 PRK15446, PRK15446, phosphonate metabolism protein PhnM;
Provisional.
Length = 383
Score = 27.5 bits (62), Expect = 5.6
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 107 DLFEELEKYFSRGNVDLIEVMD 128
D E E + VDL+ +MD
Sbjct: 147 DALELFEALLAHPRVDLVSLMD 168
>gnl|CDD|223035 PHA03294, PHA03294, envelope glycoprotein H; Provisional.
Length = 835
Score = 27.8 bits (62), Expect = 6.1
Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 15/67 (22%)
Query: 3 ESLRICTSRLSCCSQEHEISVHNVIRQSYDKHLRQT-------LYS--LSSI---LKSRA 50
+L + T+ C+ EH + ++++ + + ++S ++S+ L A
Sbjct: 532 RALLLATA---MCTAEHAAAAALDLQEALARLDARGTPFSLLDVFSPCMASLRFDLAEEA 588
Query: 51 HRFDALS 57
H D LS
Sbjct: 589 HVLDLLS 595
>gnl|CDD|234225 TIGR03480, HpnN, hopanoid biosynthesis associated RND transporter
like protein HpnN. The genomes containing members of
this family share the machinery for the biosynthesis of
hopanoid lipids. Furthermore, the genes of this family
are usually located proximal to other components of this
biological process. The proteins appear to be related to
the RND family of export proteins, particularly the
hydrophobe/amphiphile efflux-3 (HAE3) family represented
by TIGR00921.
Length = 862
Score = 27.7 bits (62), Expect = 6.7
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 77 ELLSTSKKSFHDMFKRTYGIIYEQNSFLFTDLFEELEK 114
E L+ + F D++ G + +N LF L E+LEK
Sbjct: 90 EKLAADRTHFEDVYFPGGGPFFRRNGLLFLPL-EDLEK 126
>gnl|CDD|225637 COG3095, MukE, Uncharacterized protein involved in chromosome
partitioning [Cell division and chromosome
partitioning].
Length = 238
Score = 27.1 bits (60), Expect = 7.4
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 101 NSFLFTDLFEELEKYFSRGNVDLIEVMDNFF 131
N D E LE++++R NV+LI + FF
Sbjct: 41 NHAFLMDFQEYLEEFYARYNVELIRAPEGFF 71
>gnl|CDD|227376 COG5043, MRS6, Vacuolar protein sorting-associated protein
[Intracellular trafficking and secretion].
Length = 2552
Score = 27.2 bits (60), Expect = 9.9
Identities = 14/66 (21%), Positives = 29/66 (43%)
Query: 144 AQYTFDDKISTLYQKIFTVLNAQYTFDDNPRQLGSPMEAHGGEPQLLNCKSDSSKSFTIR 203
+Q+ + + F + ++ T ++ PR+L S + G +L + K ++ I
Sbjct: 1244 SQHLILLDLIDVVTTFFRIDSSFSTSENLPRELDSEFDRSGTPVKLKHSKKTVVETLDIL 1303
Query: 204 FGVKNP 209
F K P
Sbjct: 1304 FTFKLP 1309
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
0.324 0.136 0.402
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,898,243
Number of extensions: 1017679
Number of successful extensions: 1267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1263
Number of HSP's successfully gapped: 36
Length of query: 219
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 126
Effective length of database: 6,812,680
Effective search space: 858397680
Effective search space used: 858397680
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (26.0 bits)