RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9706
(39 letters)
>gnl|CDD|221101 pfam11382, DUF3186, Protein of unknown function (DUF3186). This
bacterial family of proteins has no known function.
Length = 307
Score = 33.9 bits (78), Expect = 7e-04
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 5 HTLEEELKDLREENKKLKEESQNALQQL 32
LE+E DLR EN +L+ E + +Q
Sbjct: 35 SGLEDEFSDLRTENDRLRAEREALNEQA 62
>gnl|CDD|234342 TIGR03752, conj_TIGR03752, integrating conjugative element protein,
PFL_4705 family. Members of this protein family are
found occasionally on plasmids such as the Pseudomonas
putida toluene catabolic TOL plasmid pWWO_p085. Usually,
however, they are found on the bacterial main chromosome
in regions flanked by markers of conjugative transfer
and/or transposition [Mobile and extrachromosomal
element functions, Plasmid functions].
Length = 472
Score = 28.8 bits (65), Expect = 0.037
Identities = 11/35 (31%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 1 MRRR-HTLEEELKDLREENKKLKEESQNALQQLRR 34
+R+R L E + L+ EN++L++ Q+ QQ+++
Sbjct: 71 LRKRLAKLISENEALKAENERLQKREQSIDQQIQQ 105
>gnl|CDD|116029 pfam07407, Seadorna_VP6, Seadornavirus VP6 protein. This family
consists of several VP6 proteins from the Banna virus
as well as a related protein VP5 from the Kadipiro
virus. Members of this family are typically of around
420 residues in length. The function of this family is
unknown.
Length = 420
Score = 28.9 bits (64), Expect = 0.042
Identities = 17/40 (42%), Positives = 25/40 (62%), Gaps = 5/40 (12%)
Query: 5 HTLE----EELKDLREENKKLKEESQNALQQLRRF-TEWT 39
H LE +EL LREEN KLK+E++ ++ R ++WT
Sbjct: 24 HELEGVSFDELAALREENAKLKKENEALKTKIHRLESDWT 63
>gnl|CDD|237560 PRK13922, PRK13922, rod shape-determining protein MreC;
Provisional.
Length = 276
Score = 28.4 bits (64), Expect = 0.050
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 6/32 (18%)
Query: 9 EELKDLREENKKLKEE------SQNALQQLRR 34
L DLREEN++LK+E L+QL
Sbjct: 69 ASLFDLREENEELKKELLELESRLQELEQLEA 100
>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 26.0 bits (58), Expect = 0.45
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 9 EELKDLREENKKLKEE 24
EE K+ ++E +KL++E
Sbjct: 768 EEWKEQKKEIEKLRKE 783
>gnl|CDD|217817 pfam03961, DUF342, Protein of unknown function (DUF342). This
family of bacterial proteins has no known function. The
proteins are in the region of 500-600 amino acid
residues in length.
Length = 450
Score = 25.7 bits (57), Expect = 0.49
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 1 MRRRHTLEEELKDLREENKKLKEESQNALQQLR 33
LEEELK+L EE +K+K L++L
Sbjct: 333 KEELKELEEELKELEEELEKIK----KLLKKLP 361
>gnl|CDD|224705 COG1792, MreC, Cell shape-determining protein [Cell envelope
biogenesis, outer membrane].
Length = 284
Score = 25.4 bits (56), Expect = 0.64
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 7 LEEELKDLREENKKLKEE 24
L EE++ L EENK+LKE
Sbjct: 88 LLEEVESLEEENKRLKEL 105
>gnl|CDD|180505 PRK06278, PRK06278, cobyrinic acid a,c-diamide synthase; Validated.
Length = 476
Score = 25.4 bits (56), Expect = 0.72
Identities = 7/20 (35%), Positives = 16/20 (80%)
Query: 8 EEELKDLREENKKLKEESQN 27
E+E +++ ++NK LKE+ ++
Sbjct: 203 EDEKEEIFKKNKILKEKLKS 222
>gnl|CDD|189541 pfam00426, VP4_haemagglut, Outer Capsid protein VP4
(Hemagglutinin).
Length = 776
Score = 25.1 bits (55), Expect = 0.88
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 4 RHTLEEELKDLREENKKLKEESQNALQQL 32
R LE +L +LREE +L +E A+ QL
Sbjct: 491 RQDLERQLNELREEFNQLSQEI--AMSQL 517
>gnl|CDD|221049 pfam11262, Tho2, Transcription factor/nuclear export subunit
protein 2. THO and TREX form a eukaryotic complex
which functions in messenger ribonucleoprotein
metabolism and plays a role in preventing the
transcription-associated genetic instability. Tho2,
along with four other subunits forms THO.
Length = 296
Score = 25.0 bits (55), Expect = 0.95
Identities = 9/33 (27%), Positives = 17/33 (51%)
Query: 2 RRRHTLEEELKDLREENKKLKEESQNALQQLRR 34
+ + L+ +K L EE KK E ++ ++L
Sbjct: 55 KEKKRLKSLIKKLEEELKKHIEHNEKTKKRLSE 87
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 24.9 bits (55), Expect = 1.2
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 7 LEEELKDLREENKKLKEESQNALQ 30
L EELK+L +E ++LK++ A
Sbjct: 737 LLEELKELEKELERLKKKLAAAEL 760
>gnl|CDD|179699 PRK03992, PRK03992, proteasome-activating nucleotidase;
Provisional.
Length = 389
Score = 24.8 bits (55), Expect = 1.3
Identities = 12/28 (42%), Positives = 19/28 (67%), Gaps = 4/28 (14%)
Query: 7 LEEELKDLREENKKLKEESQNALQQLRR 34
LE +L+DL EN+KL+ E L++L+
Sbjct: 20 LELKLRDLEAENEKLERE----LERLKS 43
Score = 23.6 bits (52), Expect = 2.6
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 2 RRRHTLEEELKDLREENKKLKE 23
LE EL+ L+ E +KLK
Sbjct: 29 AENEKLERELERLKSELEKLKS 50
>gnl|CDD|217477 pfam03291, Pox_MCEL, mRNA capping enzyme. This family of enzymes
are related to pfam03919.
Length = 327
Score = 24.7 bits (54), Expect = 1.4
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 12 KDLREENKKLKEESQNALQQLRRFTEW 38
+L E LK+ + + QLR F W
Sbjct: 19 NELPESGIDLKKRQDSTIDQLRNFNNW 45
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 24.5 bits (54), Expect = 1.6
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 2 RRRHTLEEELKDLREENKKLKEE 24
++EEL+++ +E + L EE
Sbjct: 215 ELIREIKEELEEIEKERESLLEE 237
Score = 24.1 bits (53), Expect = 1.9
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 6 TLEEELKDLREENKKLKEESQNALQQLRR 34
+E+E+K+L EE +L+ E + Q++ R
Sbjct: 97 KIEKEIKELEEEISELENEIKELEQEIER 125
>gnl|CDD|234173 TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members
of this protein family are the bacterial ATP-dependent
chaperone ClpB. This protein belongs to the AAA family,
ATPases associated with various cellular activities
(pfam00004). This molecular chaperone does not act as a
protease, but rather serves to disaggregate misfolded
and aggregated proteins [Protein fate, Protein folding
and stabilization].
Length = 852
Score = 24.1 bits (53), Expect = 2.0
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 2 RRRHTLEEELKDLREENKKLKE 23
R LE+EL +L EE L+E
Sbjct: 434 ERLEDLEKELAELEEEYADLEE 455
>gnl|CDD|219186 pfam06810, Phage_GP20, Phage minor structural protein GP20. This
family consists of several phage minor structural
protein GP20 sequences of around 180 residues in
length. The function of this family is unknown.
Length = 156
Score = 23.8 bits (52), Expect = 2.2
Identities = 8/27 (29%), Positives = 18/27 (66%)
Query: 7 LEEELKDLREENKKLKEESQNALQQLR 33
L+++++ L+++NK KEE + L +
Sbjct: 56 LQKKIEKLKQQNKTAKEEYEAKLADTK 82
>gnl|CDD|217526 pfam03385, DUF288, Protein of unknown function, DUF288.
Length = 390
Score = 24.0 bits (52), Expect = 2.3
Identities = 15/33 (45%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 3 RRHTLEEELKDLREENKKLKEESQNALQQLRRF 35
RR LE EL D NK E Q A Q+L F
Sbjct: 137 RRMHLEFELVD---PNKTEDESIQRAEQKLNYF 166
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 24.1 bits (52), Expect = 2.5
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 5 HTLEEELKDLREENKKLKEESQNALQQLRRFTE 37
H+L +EL L+EEN LK++ Q +L E
Sbjct: 222 HSLSKELDVLKEENMLLKDDIQFLKAELIEVAE 254
>gnl|CDD|235503 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
Length = 742
Score = 23.9 bits (53), Expect = 2.5
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 4 RHTLEEELKDLREENKKLKE 23
+ +E +LR+E +L+
Sbjct: 439 EIEIRKEQDELRKEIAELEA 458
>gnl|CDD|222290 pfam13654, AAA_32, AAA domain. This family includes a wide variety
of AAA domains including some that have lost essential
nucleotide binding residues in the P-loop.
Length = 509
Score = 23.6 bits (52), Expect = 2.7
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 2 RRRHTLEEELKDLREENKKLKEESQNALQQLRR 34
+ LEEEL+++ + ++L+ E++ L++L R
Sbjct: 182 EKIDELEEELQEILRQLRELEREAREKLRELDR 214
Score = 23.2 bits (51), Expect = 4.5
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 8 EEELKDLREENKKLKEESQNALQQLRR 34
EEE ++L E+ +L+EE Q L+QLR
Sbjct: 174 EEEREELEEKIDELEEELQEILRQLRE 200
>gnl|CDD|180307 PRK05892, PRK05892, nucleoside diphosphate kinase regulator;
Provisional.
Length = 158
Score = 23.6 bits (51), Expect = 2.8
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 4 RHTLEEELKDLREENKKLKEE 24
R LE EL LR +L E
Sbjct: 13 RDHLEAELARLRARRDRLAVE 33
>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular
trafficking and secretion].
Length = 340
Score = 23.4 bits (51), Expect = 3.3
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 16/51 (31%)
Query: 3 RRHT---LEEELKDLREENKKLKEES-------------QNALQQLRRFTE 37
R H L +ELK + KK ++ QNAL Q + F E
Sbjct: 232 RLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNE 282
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 23.0 bits (50), Expect = 4.3
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 9 EELKDLREENKKLKEE 24
EE K+ R+E ++LK++
Sbjct: 772 EEWKEQRKEIERLKKK 787
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 23.1 bits (51), Expect = 4.6
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 7 LEEELKDLREENKKLKEE 24
L EELK+L +E ++LK +
Sbjct: 724 LLEELKELEKELEQLKAK 741
>gnl|CDD|232931 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the reaction
(tRNAala + L-alanine + ATP = L-alanyl-tRNAala +
pyrophosphate + AMP) [Protein synthesis, tRNA
aminoacylation].
Length = 851
Score = 23.1 bits (50), Expect = 5.2
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 5 HTLEEELKDLREENKKLKEE 24
EE K L++E + LK +
Sbjct: 729 ERFFEEWKALQKELESLKLK 748
>gnl|CDD|220735 pfam10408, Ufd2P_core, Ubiquitin elongating factor core. This is
the most conserved part of the core region of Ufd2P
ubiquitin elongating factor or E4, running from helix
alpha-11 to alpha-38. It consists of 31 helices of
variable length connected by loops of variable size
forming a compact unit; the helical packing pattern of
the compact unit consists of five structural repeats
that resemble tandem Armadillo (ARM) repeats. This
domain is involved in ubiquitination as it binds Cdc48p
and escorts ubiquitinated proteins from Cdc48p to the
proteasome for degradation. The core is structurally
similar to the nuclear transporter protein
importin-alpha. The core is associated with the U-box at
the C-terminus, pfam04564, which has ligase activity.
Length = 625
Score = 23.0 bits (50), Expect = 5.8
Identities = 9/31 (29%), Positives = 16/31 (51%)
Query: 5 HTLEEELKDLREENKKLKEESQNALQQLRRF 35
L++EL+D E +EE + +LR+
Sbjct: 460 KQLQKELQDRAEWESLSQEEREERESELRQL 490
>gnl|CDD|182409 PRK10361, PRK10361, DNA recombination protein RmuC; Provisional.
Length = 475
Score = 22.6 bits (48), Expect = 7.0
Identities = 10/32 (31%), Positives = 22/32 (68%)
Query: 2 RRRHTLEEELKDLREENKKLKEESQNALQQLR 33
+ RHTL E+++L++ N ++ +E+ N + L+
Sbjct: 165 QERHTLAHEIRNLQQLNAQMAQEAINLTRALK 196
>gnl|CDD|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 406
Score = 22.6 bits (49), Expect = 7.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 3 RRHTLEEELKDLREENKKLKE 23
L+ E+ LREE ++LKE
Sbjct: 50 EGLRLKREVDRLREEIERLKE 70
>gnl|CDD|235219 PRK04098, PRK04098, sec-independent translocase; Provisional.
Length = 158
Score = 22.8 bits (49), Expect = 7.1
Identities = 10/33 (30%), Positives = 23/33 (69%), Gaps = 2/33 (6%)
Query: 6 TLEEELK--DLREENKKLKEESQNALQQLRRFT 36
TL++E+ +++EE K K+E ++A++ L++
Sbjct: 49 TLDKEINIEEIKEEALKYKKEFESAVESLKKKL 81
>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 = 22.5 bits (48), Expect = 8.7
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 5 HTLEEELKDLREENKKLKEESQNALQQLRRFTE 37
HT E K LR++ + L++E + QQL +
Sbjct: 14 HTTLMENKSLRQKIRALEKEMHSLRQQLEESQQ 46
>gnl|CDD|182346 PRK10265, PRK10265, chaperone-modulator protein CbpM;
Provisional.
Length = 101
Score = 22.4 bits (48), Expect = 8.8
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 14 LREENKKLKEESQNALQQLRRF 35
L +E LK+E++ Q+L RF
Sbjct: 76 LLDEIAHLKQENRLLRQRLSRF 97
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
0.312 0.125 0.341
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,134,221
Number of extensions: 122754
Number of successful extensions: 1248
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1235
Number of HSP's successfully gapped: 221
Length of query: 39
Length of database: 10,937,602
Length adjustment: 13
Effective length of query: 26
Effective length of database: 10,361,000
Effective search space: 269386000
Effective search space used: 269386000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)