RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9825
(280 letters)
>gnl|CDD|217309 pfam02990, EMP70, Endomembrane protein 70.
Length = 518
Score = 300 bits (770), Expect = 2e-99
Identities = 114/235 (48%), Positives = 157/235 (66%)
Query: 46 VYMYSFYYFFFKTKRGSLLSTAIFVYALTSPVNGYAGGALYSRLGGRAWIRHCLLSACLV 105
+++ F + RGSLL+ AI +YALT V GY LY G+ W R+ +L+A L
Sbjct: 278 TIVFACLGFLSPSNRGSLLTAAIVLYALTGFVAGYVSARLYKTFKGKKWKRNLILTAFLF 337
Query: 106 PVLVCATALVVNFIAMYYHASRAIPFGTMVAVACICLFIILPLTLVGAVLGRNLSGQQDN 165
P +V V+NF+ Y +S AIPFGT+VA+ + + +PLT +G ++G + +
Sbjct: 338 PGIVFVIFFVLNFVLWAYGSSGAIPFGTIVALLLLWFLVSVPLTFLGGIVGFRNRAGEQH 397
Query: 166 PCRVNAVPRPIPEKKWFMEPLVIILLGGILPFGSIFIEMYFIFTSFWAYKIYYVYGFMLL 225
P R N +PR IPE+ W++ PL IL+GGILPFG+IFIE++FIFTS W +KIYY++GF+ L
Sbjct: 398 PVRTNQIPRQIPEQPWYLSPLPGILMGGILPFGAIFIELFFIFTSLWLHKIYYMFGFLFL 457
Query: 226 VFLILMIVTVCVTIVCTYFLLNAEDYRWQWTSFLAAYSTSFYVYMYSFYYFFFKT 280
VF+IL++V VTIV TYF L AEDYRW W SFL + ST+ YV++YS YYFF K
Sbjct: 458 VFIILVVVCSEVTIVLTYFQLCAEDYRWWWRSFLTSGSTAVYVFLYSIYYFFTKL 512
Score = 94.3 bits (235), Expect = 8e-22
Identities = 36/59 (61%), Positives = 44/59 (74%)
Query: 1 MLLVFLILMIVTVCVTIVCTYFLLNAEDYRWQWTSFLAAYSTSFYVYMYSFYYFFFKTK 59
+ LVF+IL++V VTIV TYF L AEDYRW W SFL + ST+ YV++YS YYFF K K
Sbjct: 455 LFLVFIILVVVCSEVTIVLTYFQLCAEDYRWWWRSFLTSGSTAVYVFLYSIYYFFTKLK 513
>gnl|CDD|233812 TIGR02290, M3_fam_3, oligoendopeptidase, pepF/M3 family. The M3
family of metallopeptidases contains several distinct
clades. Oligoendopeptidase F as characterized in
Lactococcus, the functionally equivalent
oligoendopeptidase B of group B Streptococcus, and
closely related sequences are described by TIGR00181.
The present family is quite similar but forms a distinct
clade, and a number of species have one member of each.
A greater sequence difference separates members of
TIGR02289, probable oligoendopeptidases of the M3 family
that probably should not be designated PepF.
Length = 587
Score = 34.6 bits (80), Expect = 0.060
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 27 EDYRWQWTSFLAAYSTSFYVYMYSFYYFF 55
E + + W Y FY Y Y+F Y F
Sbjct: 494 ELHPYMWAYKPHFYHAPFYNYPYTFGYLF 522
Score = 34.6 bits (80), Expect = 0.060
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 249 EDYRWQWTSFLAAYSTSFYVYMYSFYYFF 277
E + + W Y FY Y Y+F Y F
Sbjct: 494 ELHPYMWAYKPHFYHAPFYNYPYTFGYLF 522
>gnl|CDD|189017 cd09610, M3B_PepF_5, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 472
Score = 31.8 bits (73), Expect = 0.42
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 27 EDYRWQWTSFLAAYSTSFYVYMYSF 51
E+YRW W+ T FYVY Y+F
Sbjct: 388 ENYRWWWSYIPHFIHTPFYVYAYAF 412
Score = 31.8 bits (73), Expect = 0.42
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 249 EDYRWQWTSFLAAYSTSFYVYMYSF 273
E+YRW W+ T FYVY Y+F
Sbjct: 388 ENYRWWWSYIPHFIHTPFYVYAYAF 412
>gnl|CDD|233509 TIGR01652, ATPase-Plipid, phospholipid-translocating P-type ATPase,
flippase. This model describes the P-type ATPase
responsible for transporting phospholipids from one
leaflet of bilayer membranes to the other. These ATPases
are found only in eukaryotes.
Length = 1057
Score = 30.0 bits (68), Expect = 1.8
Identities = 15/73 (20%), Positives = 23/73 (31%), Gaps = 8/73 (10%)
Query: 3 LVFLILMIVTVCVTIVCTYFLLNAEDYRWQWTSFLA------AYSTSFYVYMYSFYYFFF 56
+ +++ T V IV L RW W S + + VY F F
Sbjct: 952 FSSVGVIVFTALVVIVNLKIALEI--NRWNWISLITIWGSILVWLIFVIVYSSIFPSPAF 1009
Query: 57 KTKRGSLLSTAIF 69
++ T F
Sbjct: 1010 YKAAPRVMGTFGF 1022
Score = 28.9 bits (65), Expect = 3.5
Identities = 11/74 (14%), Positives = 24/74 (32%), Gaps = 2/74 (2%)
Query: 202 IEMYFIFTSFWAYKIYYVYGFMLLVFLILMIVTVCVTIVCTYFLLNAEDYRWQWTSFLAA 261
+ +F ++ + +++ T V IV L RW W S +
Sbjct: 929 VIFFFPMFAYILGDFVSSGSVDDFSSVGVIVFTALVVIVNLKIALEI--NRWNWISLITI 986
Query: 262 YSTSFYVYMYSFYY 275
+ + ++ Y
Sbjct: 987 WGSILVWLIFVIVY 1000
>gnl|CDD|226404 COG3887, COG3887, Predicted signaling protein consisting of a
modified GGDEF domain and a DHH domain [Signal
transduction mechanisms].
Length = 655
Score = 29.6 bits (67), Expect = 2.2
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 179 KKWFMEPLVIILLGGILPFGSIFIEMYFIFTSFWAYKIYYVYGFMLLVFLILMIV 233
K + L I LG I F I I + F F W I +L+VFLI +++
Sbjct: 3 KFYHKRLLSYIFLGLIA-FSIILIIVSFSFNW-WLSAIAV---LLLVVFLIFLLL 52
>gnl|CDD|233993 TIGR02745, ccoG_rdxA_fixG, cytochrome c oxidase accessory protein
FixG. Member of this ferredoxin-like protein family are
found exclusively in species with an operon encoding the
cbb3 type of cytochrome c oxidase (cco-cbb3), and near
the cco-cbb3 operon in about half the cases. The
cco-cbb3 is found in a variety of proteobacteria and
almost nowhere else, and is associated with oxygen use
under microaerobic conditions. Some (but not all) of
these proteobacteria are also nitrogen-fixing, hence the
gene symbol fixG. FixG was shown essential for
functional cco-cbb3 expression in Bradyrhizobium
japonicum.
Length = 434
Score = 28.0 bits (63), Expect = 5.6
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 203 EMYFIFTSFWAYKIYYVYGFMLLVFLILMIVTV 235
+ +F +FW + Y + G +++ L L +T
Sbjct: 38 QFHFFGITFWPQEFYLLAGLLIIAALGLFFITT 70
>gnl|CDD|224376 COG1459, PulF, Type II secretory pathway, component PulF [Cell
motility and secretion / Intracellular trafficking and
secretion].
Length = 397
Score = 27.6 bits (62), Expect = 7.6
Identities = 12/24 (50%), Positives = 16/24 (66%), Gaps = 2/24 (8%)
Query: 182 FMEPLVIILLGGILPFGSIFIEMY 205
+EPL+II LG I G+I + MY
Sbjct: 365 LLEPLLIIFLGVI--VGTIVLAMY 386
>gnl|CDD|227881 COG5594, COG5594, Uncharacterized integral membrane protein
[Function unknown].
Length = 827
Score = 27.8 bits (62), Expect = 7.6
Identities = 11/58 (18%), Positives = 24/58 (41%), Gaps = 10/58 (17%)
Query: 218 YVYGFMLLVFLILMIVTVCVTIVCTYFLLNAEDYRWQWTSFLAAYSTSFYVYMYSFYY 275
+ +G +L ++L +T+C +I+ LL + ++ Y Y+ Y
Sbjct: 603 FQFGTVLPQPILLFTITICYSIISPLILLFG----------AVYFILNYLAYKYNLIY 650
>gnl|CDD|169981 PRK09577, PRK09577, multidrug efflux protein; Reviewed.
Length = 1032
Score = 27.9 bits (62), Expect = 8.1
Identities = 24/63 (38%), Positives = 33/63 (52%), Gaps = 11/63 (17%)
Query: 100 LSACLVPVLVCATALVVNFIAMY-YHASRAIPFGTMVAVACICLFIILPLTLVGAVLGRN 158
LS P+L + LVV F+A+ + S +IPF M+ V PL ++GAVLG
Sbjct: 862 LSGAQAPMLFALSVLVV-FLALAALYESWSIPFAVMLVV---------PLGVIGAVLGVT 911
Query: 159 LSG 161
L G
Sbjct: 912 LRG 914
>gnl|CDD|234454 TIGR04066, nat_prod_clost, peptide maturation system protein,
TIGR04066 family. Members of this protein family occur
in various Clostridial genomes, always in the context of
a short peptide and a radical SAM protein predicted to
modify the short peptide. PSI-BLAST analysis suggests a
sequence relationship to archaeal proteins designated as
subunits of an H+-transporting two-sector ATPase. The
modified peptide is likely to be a bacteriocin, and this
protein is a candidate to act in either maturation or
immunity.
Length = 361
Score = 27.3 bits (61), Expect = 8.8
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 23/70 (32%)
Query: 184 EPLVIIL--LGGILPFGSIFIEMYFIFTSFWAYKIYYVYGFMLLVFLILMIVTVCVTIVC 241
+P +II+ GGI+PF F +L F++ V + I+
Sbjct: 226 KPDIIIIGIPGGIMPFNR-----------------KITNYFGILAFIVSQAVRPDIAILS 268
Query: 242 TYFLLNAEDY 251
Y+ EDY
Sbjct: 269 LYY----EDY 274
>gnl|CDD|226619 COG4135, COG4135, ABC-type uncharacterized transport system,
permease component [General function prediction only].
Length = 551
Score = 27.6 bits (61), Expect = 9.5
Identities = 16/86 (18%), Positives = 29/86 (33%), Gaps = 2/86 (2%)
Query: 129 IPFGTMVAVACICLFIILPLTLVGAVLGRNLSGQQDNPCRVNAVPRPIPEKKWFMEPLVI 188
I TMV +A + L L ++ L Q+ +P +P V+
Sbjct: 348 INSLTMVLLALSASSLALLLLIL--WLEWGGIPQRRQAYLWLWLPILLPALSLVFGQQVL 405
Query: 189 ILLGGILPFGSIFIEMYFIFTSFWAY 214
L G+ + + + +F W
Sbjct: 406 ALWLGLDGSWTAVVWGHLLFVMPWVL 431
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
0.336 0.146 0.487
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,901,276
Number of extensions: 1480696
Number of successful extensions: 5074
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4794
Number of HSP's successfully gapped: 476
Length of query: 280
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 184
Effective length of database: 6,679,618
Effective search space: 1229049712
Effective search space used: 1229049712
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 58 (26.1 bits)