RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15835
(116 letters)
>gnl|CDD|201683 pfam01245, Ribosomal_L19, Ribosomal protein L19.
Length = 113
Score = 46.0 bits (110), Expect = 1e-07
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 15 NQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTR--KFVGICIQKRYCGL 72
+ +++E + K D+P F VG + V K + NK R F G+ I KR GL
Sbjct: 1 MNLIKEIEAEQLKK-----DLPEFRVGDTVKVHVKIK-EGNKERIQVFEGVVIAKRGRGL 54
Query: 73 RHEFVLRNVVDNLG 86
F +R + +G
Sbjct: 55 NSTFTVRKISQGVG 68
>gnl|CDD|202620 pfam03411, Peptidase_M74, Penicillin-insensitive murein
endopeptidase.
Length = 240
Score = 33.3 bits (76), Expect = 0.013
Identities = 14/66 (21%), Positives = 30/66 (45%)
Query: 5 FLPDPELKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGIC 64
+L P+ ++ + + + D++ R + + I S+ DP+ TR FV
Sbjct: 88 WLQMPKTRWTSAQLLRPQALDLVSRDGKHVDSTLWKPEIFSLIKLAAQDPDVTRIFVNPA 147
Query: 65 IQKRYC 70
I+++ C
Sbjct: 148 IKQQLC 153
>gnl|CDD|226293 COG3770, MepA, Murein endopeptidase [Cell envelope biogenesis,
outer membrane].
Length = 284
Score = 32.0 bits (73), Expect = 0.040
Identities = 19/66 (28%), Positives = 33/66 (50%)
Query: 5 FLPDPELKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSADKHDPNKTRKFVGIC 64
+L P+ ++ + RE+ + DM+KR+ P + S+ DP+ TR FV
Sbjct: 127 WLQMPKTRWTDAQRERPQALDMVKRKGKRVDPRLWTPQHASLIKLAASDPDVTRIFVNPA 186
Query: 65 IQKRYC 70
I+K+ C
Sbjct: 187 IKKKLC 192
>gnl|CDD|223412 COG0335, RplS, Ribosomal protein L19 [Translation, ribosomal
structure and biogenesis].
Length = 115
Score = 31.0 bits (71), Expect = 0.059
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 34 DIPSFFVGSILSVTSADKHDPNKTR--KFVGICIQKRYCGLRHEFVLRNVVDNLG 86
DIPSF G + V + +K R F G+ I +R G+ F +R + +G
Sbjct: 17 DIPSFRPGDTVRVHVKIV-EGSKERVQAFEGVVIARRGRGISETFTVRKISYGVG 70
>gnl|CDD|233454 TIGR01536, asn_synth_AEB, asparagine synthase
(glutamine-hydrolyzing). This model describes the
glutamine-hydrolysing asparagine synthase. A poorly
conserved C-terminal extension was removed from the
model. Bacterial members of the family tend to have a
long, poorly conserved insert lacking from archaeal and
eukaryotic sequences. Multiple isozymes have been
demonstrated, such as in Bacillus subtilis. Long-branch
members of the phylogenetic tree (which typically were
also second or third candidate members from their
genomes) were removed from the seed alignment and score
below trusted cutoff [Amino acid biosynthesis, Aspartate
family].
Length = 466
Score = 29.6 bits (67), Expect = 0.34
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 1 MYQEFLPDPELKFRNQVREKLERSDMIKRRSVIDIPSFFVGSILS 45
++ D E +++R LE + +KRR V D+P VG +LS
Sbjct: 221 ERRDEHTDSEEDLVDELRSLLEDA--VKRRLVADVP---VGVLLS 260
>gnl|CDD|215091 PLN00179, PLN00179, acyl- [acyl-carrier protein] desaturase.
Length = 390
Score = 29.3 bits (66), Expect = 0.46
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 3 QEFLPDPE-LKFRNQVREKLERS 24
Q+FLPDP F +QV+E ER+
Sbjct: 90 QDFLPDPASEGFYDQVKELRERA 112
>gnl|CDD|130096 TIGR01024, rplS_bact, ribosomal protein L19, bacterial type.
This model describes bacterial ribosomoal protein L19
and its chloroplast equivalent. Putative mitochondrial
L19 are found in several species (but not Saccharomyces
cerevisiae) and score between trusted and noise cutoffs
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 113
Score = 26.9 bits (60), Expect = 1.5
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 34 DIPSFFVGSILSVTSADKHDPNKTR--KFVGICIQKRYCGLRHEFVLRNVVDNLG 86
D+P F VG + V + K R F G+ I +R G+ F +R + +G
Sbjct: 15 DLPDFRVGDTVRVHVKIV-EGKKERIQVFEGVVIARRGGGIGETFTVRKISYGVG 68
>gnl|CDD|237497 PRK13767, PRK13767, ATP-dependent helicase; Provisional.
Length = 876
Score = 27.2 bits (61), Expect = 2.5
Identities = 9/23 (39%), Positives = 17/23 (73%), Gaps = 1/23 (4%)
Query: 8 DPELKFRNQVREKLERSDMIKRR 30
+PE R ++E L+R++++KRR
Sbjct: 725 NPE-NVREILKEALDRTELLKRR 746
>gnl|CDD|215079 PLN00151, PLN00151, potassium transporter; Provisional.
Length = 852
Score = 27.0 bits (60), Expect = 2.6
Identities = 10/24 (41%), Positives = 18/24 (75%)
Query: 6 LPDPELKFRNQVREKLERSDMIKR 29
LP PEL+ +++E+LE S ++K+
Sbjct: 207 LPTPELERSLKIKERLETSSLLKK 230
>gnl|CDD|225339 COG2718, COG2718, Uncharacterized conserved protein [Function
unknown].
Length = 423
Score = 27.0 bits (60), Expect = 2.7
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 12 KFRNQVREKLERS--DMIKRRSVIDIPSFFVGSI 43
+F + +E +++S D + RS+ D+ S V SI
Sbjct: 21 RFLRRYKEAIKQSIPDAVSERSITDLDSGEVVSI 54
>gnl|CDD|235418 PRK05338, rplS, 50S ribosomal protein L19; Provisional.
Length = 116
Score = 26.2 bits (59), Expect = 2.9
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 11/59 (18%)
Query: 34 DIPSFFVGSILSVTSADKH----DPNKTR--KFVGICIQKRYCGLRHEFVLRNVVDNLG 86
DIP F G + V H + NK R F G+ I +R GL F +R + +G
Sbjct: 15 DIPEFRPGDTVRV-----HVKVVEGNKERIQAFEGVVIARRGRGLNETFTVRKISYGVG 68
>gnl|CDD|219740 pfam08192, Peptidase_S64, Peptidase family S64. This family of
fungal proteins is involved in the processing of
membrane bound transcription factor Stp1. The processing
causes the signalling domain of Stp1 to be passed to the
nucleus where several permease genes are induced. The
permeases are important for uptake of amino acids, and
processing of tp1 only occurs in an amino acid-rich
environment. This family is predicted to be distantly
related to the trypsin family (MEROPS:S1) and to have a
typical trypsin-like catalytic triad.
Length = 644
Score = 26.6 bits (59), Expect = 3.1
Identities = 9/19 (47%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 6 LPDPELKFRN-QVREKLER 23
DP L+F N VR+ L R
Sbjct: 517 EYDPALRFDNLYVRKVLMR 535
>gnl|CDD|217538 pfam03405, FA_desaturase_2, Fatty acid desaturase.
Length = 330
Score = 26.7 bits (59), Expect = 3.5
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 3 QEFLPDPELK-FRNQVREKLERS 24
Q+FLPDP F QV+E ER+
Sbjct: 33 QDFLPDPSSDGFYEQVKELRERT 55
>gnl|CDD|179540 PRK03113, PRK03113, putative disulfide oxidoreductase; Provisional.
Length = 139
Score = 26.2 bits (58), Expect = 3.5
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 61 VGICIQKRYCGLRHEFVLRNVVDNLGAVPCTGDRHGPYLSLLG 103
+G CI + ++ + G VPCTG+ Y++ G
Sbjct: 75 IGACISLYHYAIQKIPFFSAAAASCGRVPCTGE----YINWFG 113
>gnl|CDD|240532 cd13127, MATE_tuaB_like, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. This
family might function as a translocase for
lipopolysaccharides and participate in the biosynthesis
of cell wall components such as teichuronic acid. The
integral membrane proteins from the MATE family are
involved in exporting metabolites across the cell
membrane and are responsible for multidrug resistance
(MDR) in many bacteria and animals. A number of family
members are involved in the synthesis of peptidoglycan
components in bacteria.
Length = 406
Score = 26.3 bits (59), Expect = 4.6
Identities = 8/37 (21%), Positives = 19/37 (51%)
Query: 13 FRNQVREKLERSDMIKRRSVIDIPSFFVGSILSVTSA 49
+ R L+R K+ ++I++ S V ++++ A
Sbjct: 121 LGSVPRALLQRELRFKKLAIIELISTLVSGVVAIVLA 157
>gnl|CDD|237072 PRK12355, PRK12355, conjugal transfer mating pair stabilization
protein TraN; Reviewed.
Length = 558
Score = 26.3 bits (58), Expect = 4.9
Identities = 6/15 (40%), Positives = 12/15 (80%), Gaps = 2/15 (13%)
Query: 58 RKFVGICIQKR--YC 70
+K +G+C++K+ YC
Sbjct: 469 KKVLGVCLEKKRSYC 483
>gnl|CDD|240367 PTZ00338, PTZ00338, dimethyladenosine transferase-like protein;
Provisional.
Length = 294
Score = 25.7 bits (57), Expect = 5.7
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 7 PDPELKFRNQVREKLERSDMIKRRSV-IDIPSFF 39
P F+ + E LE S M ++RSV +DI F
Sbjct: 247 PVSLEPFKEFIAEILEDSGMFEKRSVKLDIDDFL 280
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 25.9 bits (57), Expect = 6.6
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 10 ELKFRNQVREKLERSDMIKR---RSVIDIPSFFVGSILSVTSAD 50
EL+FR REK + + R I I VG I+S+++ D
Sbjct: 154 ELQFRQLNREKSAQKIAVIRGGQEQQISIHDIVVGDIVSLSTGD 197
>gnl|CDD|237115 PRK12489, PRK12489, anaerobic C4-dicarboxylate transporter;
Reviewed.
Length = 443
Score = 25.6 bits (57), Expect = 7.4
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 11/50 (22%)
Query: 2 YQEFLPDPELKFRNQVREKLERSDMIK-----RRSVIDIPSFFVGSILSV 46
+QE L DPE FR V K + +V F+ +I V
Sbjct: 205 FQERLKDPE--FREYVYGTTATLLDKKLPKSAKLAV----WIFLAAIAVV 248
>gnl|CDD|115849 pfam07220, DUF1420, Protein of unknown function (DUF1420). This
family consists of several hypothetical putative
lipoproteins which seem to be found specifically in the
bacterium Leptospira interrogans. Members of this family
are typically around 670 resides in length and their
function is unknown.
Length = 672
Score = 25.6 bits (56), Expect = 8.2
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 33 IDIPSFFVGSILSVTSADKHDPNKTRKFVGICI 65
I + SF + +L + S K D NK F+ ICI
Sbjct: 292 IGMTSFAITLLLEIFSKAKTDKNKLFAFILICI 324
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 25.6 bits (57), Expect = 8.2
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 32 VIDIPSFFVG 41
V+DIP F+VG
Sbjct: 357 VLDIPGFYVG 366
>gnl|CDD|234436 TIGR03997, mycofact_OYE_2, mycofactocin system FadH/OYE family
oxidoreductase 2. The yeast protein called old yellow
enzyme and FadH from Escherichia coli (2,4-dienoyl CoA
reductase) are enzymes with 4Fe-4S, FMN, and FAD
prosthetic groups, and interact with NADPH as well as
substrate. Members of this related protein family occur
in the vicinity of the putative mycofactocin
biosynthesis operon in a number of Actinobacteria such
as Frankia sp. and Rhodococcus sp., in Pelotomaculum
thermopropionicum SI (Firmicutes), and in Geobacter
uraniireducens Rf4 (Deltaproteobacteria). The function
of this oxidoreductase is unknown.
Length = 645
Score = 25.4 bits (56), Expect = 8.3
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 30 RSVIDIPSFFVGSILSVTSADK 51
R +D+P F VG I A++
Sbjct: 280 REAVDLPVFAVGRINDPAQAER 301
>gnl|CDD|218005 pfam04285, DUF444, Protein of unknown function (DUF444).
Bacterial protein of unknown function. One family
member is predicted to contain a von Willebrand factor
(vWF) type A domain (Smart:VWA).
Length = 421
Score = 25.1 bits (55), Expect = 9.8
Identities = 10/34 (29%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 12 KFRNQVREKLERS--DMIKRRSVIDIPSFFVGSI 43
+F +V+E +++S D + S+ID+ V I
Sbjct: 21 RFLERVQEAIKKSLPDAVSEESIIDLNGGEVVKI 54
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 0.143 0.430
Gapped
Lambda K H
0.267 0.0695 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,095,466
Number of extensions: 524870
Number of successful extensions: 397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 396
Number of HSP's successfully gapped: 30
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
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: 41 (22.0 bits)
S2: 53 (24.3 bits)