RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3481
(340 letters)
>gnl|CDD|206077 pfam13906, AA_permease_C, C-terminus of AA_permease. This is the
C-terminus of AA-permease enzymes that is not captured
by the models pfam00324 and pfam13520.
Length = 51
Score = 74.6 bits (184), Expect = 2e-17
Identities = 23/38 (60%), Positives = 29/38 (76%)
Query: 256 FKVPLVPFVPGLSIFFNIELMANLNVLTWLRFIIWMAL 293
FKVPLVPF+P LSI NI LM L+ LTW+RF +W+ +
Sbjct: 1 FKVPLVPFLPALSILINIYLMVQLDALTWIRFAVWLLI 38
>gnl|CDD|129984 TIGR00906, 2A0303, cationic amino acid transport permease.
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 557
Score = 70.2 bits (172), Expect = 3e-13
Identities = 27/47 (57%), Positives = 33/47 (70%)
Query: 247 HEQNMEGLRFKVPLVPFVPGLSIFFNIELMANLNVLTWLRFIIWMAL 293
QN + + FKVPLVPF+P LSI NI LM L+ TW+RF IWMA+
Sbjct: 496 QPQNKQKVAFKVPLVPFLPALSILINIFLMVQLDADTWVRFAIWMAI 542
>gnl|CDD|129987 TIGR00909, 2A0306, amino acid transporter. [Transport and binding
proteins, Amino acids, peptides and amines].
Length = 429
Score = 47.1 bits (112), Expect = 7e-06
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 256 FKVPLVPFVPGLSIFFNIELMANLNVLTWLRFIIWMAL 293
F+ PLVP +P L + + I L+ NL T + F++WM L
Sbjct: 384 FRCPLVPVLPVLVVSYCIYLLLNLGPGTTVWFLVWMLL 421
>gnl|CDD|233417 TIGR01447, recD, exodeoxyribonuclease V, alpha subunit. This
family describes the exodeoxyribonuclease V alpha
subunit, RecD. RecD is part of a RecBCD complex. A
related family in the Gram-positive bacteria separates
in a phylogenetic tree, has an additional N-terminal
extension of about 200 residues, and is not supported as
a member of a RecBCD complex by neighboring genes. The
related family is consequently described by a different
model [DNA metabolism, DNA replication, recombination,
and repair].
Length = 586
Score = 33.2 bits (76), Expect = 0.23
Identities = 10/42 (23%), Positives = 19/42 (45%)
Query: 37 YNSKALKEDDPKAALQSFQKVLDLESGERGEWGFKALKQMIK 78
+ K D K L++F ++ L + G +G L + I+
Sbjct: 409 FLQKLAALSDIKEILETFDRLRLLTALRDGPFGVLGLNRRIE 450
>gnl|CDD|236598 PRK09631, PRK09631, DNA topoisomerase IV subunit A; Provisional.
Length = 635
Score = 31.6 bits (72), Expect = 0.73
Identities = 28/143 (19%), Positives = 60/143 (41%), Gaps = 21/143 (14%)
Query: 97 LLYIKSAVTRNYSEKSINSILDYISTSKNMELLQDFYETTLEALKDAKNDRLWFKTNTKL 156
LL IK R ++ I+ + + E LQ + LE + ++++ KT ++
Sbjct: 296 LLVIKD---RYPVIYTVTDIIKF-----HAEHLQKVLKMELELERAKLLEKIFAKTLEQI 347
Query: 157 ---GKLYFDREDFNKLSRI-------LKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMY 206
++Y E + + LK + D E+D++ LL+I I ++
Sbjct: 348 FIEERIYKRIETISSEEDVISIVLSELKPFKEELSRDVTEEDIEN---LLKIPIRRISLF 404
Query: 207 TAQKNNKKLKKLYEQSLHIKSAI 229
KN K+++ L ++ ++ +
Sbjct: 405 DIDKNQKEIRILNKELKSVEKNL 427
>gnl|CDD|153128 cd02437, CCC1_like_1, CCC1-related protein family. CCC1_like_1:
This is a protein family closely related to CCC1, a
family of proteins involved in iron and manganese
transport. Yeast CCC1 is a vacuole transmembrane protein
responsible for the iron and manganese accumulation in
vacuole. .
Length = 175
Score = 30.5 bits (69), Expect = 0.79
Identities = 21/91 (23%), Positives = 36/91 (39%), Gaps = 14/91 (15%)
Query: 201 LEIQMYTAQKNNKKLKKLYEQSLHIKSAIPHPLIMGVIRGLFVIEAHEQNMEGLRFKVPL 260
LE + + + L E+ K+ +P LI G+ L + +PL
Sbjct: 66 LEEKEKILLRLEQMLTSTREELAIRKADLPSGLIQGISTTLGGL-------------LPL 112
Query: 261 VPFVP-GLSIFFNIELMANLNVLTWLRFIIW 290
+PF+P L + I + L +L L +I
Sbjct: 113 LPFLPFDLWLAAGIAVAIVLAILFILGLVIG 143
>gnl|CDD|227910 COG5623, CLP1, Predicted GTPase subunit of the pre-mRNA cleavage
complex [Translation, ribosomal structure and
biogenesis].
Length = 424
Score = 30.7 bits (69), Expect = 1.3
Identities = 24/103 (23%), Positives = 39/103 (37%), Gaps = 9/103 (8%)
Query: 73 LKQMIKINFKLSNYKEMMSRYK----QLLLYIKSAVTRNYSEKSINSILDYISTSKNMEL 128
LK + NF L+ E M Y +L +K+ + +D S S+ E
Sbjct: 177 LKNPLVFNFGLTEITENMELYDLQTSKLQEAVKARNHLVEDLRLSGCPVDTPSISQLDEN 236
Query: 129 LQDFYETTLEALKDAK-----NDRLWFKTNTKLGKLYFDREDF 166
L FY T ++ + ++RL+ KL +R F
Sbjct: 237 LAAFYHTIIKRFEVNIVVVLGSERLYHSLKVIAEKLMINRIFF 279
>gnl|CDD|217641 pfam03616, Glt_symporter, Sodium/glutamate symporter.
Length = 368
Score = 29.6 bits (67), Expect = 2.4
Identities = 24/91 (26%), Positives = 40/91 (43%), Gaps = 13/91 (14%)
Query: 193 TQLLEIYALEIQMYTAQKNNKKLKKLYEQSLHIKSAIPHPLIMGVIRGLFVIEAHEQNME 252
T L I L + + KK+K L + +I P P++ G+I + ++ +
Sbjct: 8 TLALAILVLLLGRFL----VKKVKFL--KKFNI----PEPVVGGLIVAILLLLLRKFGGT 57
Query: 253 GLRFKVPL-VPFVPGLSIFFNIELMANLNVL 282
+ F L P + L+ F I L ANL +L
Sbjct: 58 DINFDASLQDPLM--LAFFTTIGLSANLKLL 86
>gnl|CDD|173731 cd06627, STKc_Cdc7_like, Catalytic domain of Cell division control
protein 7-like Protein Serine/Threonine Kinases.
Serine/threonine kinases (STKs), (Cdc7)-like subfamily,
catalytic (c) domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The Cdc7-like subfamily
is part of a larger superfamily that includes the
catalytic domains of other protein STKs, protein
tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. Members of this subfamily include
Schizosaccharomyces pombe Cdc7, Saccharomyces cerevisiae
Cdc15, Arabidopsis thaliana mitogen-activated protein
kinase (MAPK) kinase kinase (MAPKKK) epsilon, and
related proteins. MAPKKKs phosphorylate and activate
MAPK kinases (MAPKKs or MKKs or MAP2Ks), which in turn
phosphorylate and activate MAPKs during signaling
cascades that are important in mediating cellular
responses to extracellular signals. Fission yeast Cdc7
is essential for cell division by playing a key role in
the initiation of septum formation and cytokinesis.
Budding yeast Cdc15 functions to coordinate mitotic exit
with cytokinesis. Arabidopsis MAPKKK epsilon is required
for pollen development in the plasma membrane.
Length = 254
Score = 29.1 bits (66), Expect = 2.9
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 17/73 (23%)
Query: 56 KVLDLESGERGEWGFKALKQMIKINFKLSNYKEMMS--------RYKQLLLYIKSAVTRN 107
K L+LE+G+ F A+KQ+ K K +M ++ ++ YI S T
Sbjct: 18 KGLNLETGD-----FVAIKQISLEKIKEEALKSIMQEIDLLKNLKHPNIVKYIGSIET-- 70
Query: 108 YSEKSINSILDYI 120
S+ IL+Y
Sbjct: 71 --SDSLYIILEYA 81
>gnl|CDD|129314 TIGR00210, gltS, sodium--glutamate symport carrier (gltS).
[Transport and binding proteins, Amino acids, peptides
and amines].
Length = 398
Score = 29.0 bits (65), Expect = 3.8
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 229 IPHPLIMGVIRGLFVIEAHEQNMEGLRFKVPL-VPFVPGLSIFFNIELMANLNVL 282
IP P++ GV+ L ++ ++ + F L P + L F I L AN L
Sbjct: 34 IPEPVVGGVLVALALLLIYKIFGTEVNFDFSLRDPLM--LIFFTTIGLSANFKSL 86
>gnl|CDD|224038 COG1113, AnsP, Gamma-aminobutyrate permease and related permeases
[Amino acid transport and metabolism].
Length = 462
Score = 28.7 bits (65), Expect = 4.4
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 246 AHEQNMEGLRFKVPLVPFVPGLSIFF 271
A + L+FK+PL PF L++ F
Sbjct: 389 AKPAEGKKLKFKMPLYPFTNYLTLAF 414
>gnl|CDD|222566 pfam14134, DUF4301, Domain of unknown function (DUF4301). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 505 and 516 amino
acids in length.
Length = 513
Score = 28.3 bits (64), Expect = 6.2
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 12/70 (17%)
Query: 85 NYKEMMSRYKQLLL------------YIKSAVTRNYSEKSINSILDYISTSKNMELLQDF 132
KE YK+LL Y++ SE+ + I+D++ ++L +DF
Sbjct: 298 RLKEETVLYKKLLAGKLVELQEKIFKYLRLLDKGKVSEEELEEIVDFLEDELCIKLPEDF 357
Query: 133 YETTLEALKD 142
+ + E L +
Sbjct: 358 EKFSDEELIE 367
>gnl|CDD|225559 COG3014, COG3014, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 449
Score = 28.4 bits (63), Expect = 6.3
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 3/53 (5%)
Query: 131 DFYETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRILKQLHQSCQTD 183
YE + + K KN LW + + G D+ +L Q +
Sbjct: 42 KAYEQSKQFTKKKKNALLW---DLQNGLSALYARDYATSLGVLDAAEQRFKQQ 91
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota). DNA
Topoisomerase I (eukaryota), DNA topoisomerase V,
Vaccina virus topoisomerase, Variola virus
topoisomerase, Shope fibroma virus topoisomeras.
Length = 391
Score = 28.1 bits (63), Expect = 7.9
Identities = 18/99 (18%), Positives = 40/99 (40%), Gaps = 7/99 (7%)
Query: 74 KQMIKINFKLSNYKEMMSRYKQLLLYIKSAVTRNYSEKSINSILDYISTSKNMELLQDFY 133
K M K+ K+ K + R K+++L + + ++ + S + + + E+ +
Sbjct: 277 KSMEKLQEKIKALKYQLKRLKKMILLFEMI---SDLKRKLKSKFERDNEKLDAEVKEKKK 333
Query: 134 ETTLEALKDAKNDRLWFKTNTKLGKLYFDREDFNKLSRI 172
E E K + +RL ++ KL D + +
Sbjct: 334 EKKKEEKKKKQIERL----EERIEKLEVQATDKEENKTV 368
>gnl|CDD|215206 PLN02362, PLN02362, hexokinase.
Length = 509
Score = 27.9 bits (62), Expect = 8.3
Identities = 16/63 (25%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 156 LGKLYFDREDFNKLSRILKQLHQSCQTDDGEDDLKKGTQLLEIYALEIQMYTAQKNNKKL 215
+G+ R + ++ +LK+L ++C+T G + Q+++ A+E+ A + KL
Sbjct: 24 VGRRVKSRRKWRRVVGVLKELEEACETPVG-----RLRQVVDAMAVEMHAGLASEGGSKL 78
Query: 216 KKL 218
K L
Sbjct: 79 KML 81
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
0.318 0.135 0.391
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,172,284
Number of extensions: 1656161
Number of successful extensions: 1930
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1925
Number of HSP's successfully gapped: 58
Length of query: 340
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 242
Effective length of database: 6,590,910
Effective search space: 1595000220
Effective search space used: 1595000220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.5 bits)