RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7415
(396 letters)
>gnl|CDD|222610 pfam14228, MOR2-PAG1_mid, Cell morphogenesis central region. This
family is the conserved central region of proteins that
are involved in cell morphogenesis.
Length = 1120
Score = 52.7 bits (126), Expect = 2e-07
Identities = 32/97 (32%), Positives = 50/97 (51%), Gaps = 8/97 (8%)
Query: 80 QHVITSLVEFLSSKHNQVLWPYEDITAKVWTIRSGEQLDIFLRHVLR--LFRESLPHALI 137
Q V+ SL++++ SK ++W ED T + S L ++ ++ F+ L
Sbjct: 1007 QQVV-SLIKYVQSKRGSMMWENEDPTLVRTELPSAALLSALVQSMVDAIFFQGDL----- 1060
Query: 138 SERWAQTALQLGLSCGSRHYAGRSLQIFRALRVPINS 174
E W + AL+ + C SRH A RS QI+RALR + S
Sbjct: 1061 RETWGEEALKWAMECTSRHLACRSHQIYRALRPSVTS 1097
>gnl|CDD|185259 PRK15361, PRK15361, pathogenicity island 2 effector protein SseD;
Provisional.
Length = 195
Score = 33.5 bits (76), Expect = 0.10
Identities = 33/127 (25%), Positives = 59/127 (46%), Gaps = 11/127 (8%)
Query: 176 MLTDILSRLVETVAETGEDMQGY-VTELLLTLESAVDALESDFRPLDHMKELFKSTPNLN 234
+ DI +L+E + + M+ Y V + L+ E V+ L++ + +D E F+++ +
Sbjct: 37 LFDDIWMKLMELAKKLRDIMRSYNVEKQRLSWELQVNVLQTQMKTID---EAFRAS-MIT 92
Query: 235 NKEAGGAGASGKRSPGLNVPGGMMGLCSHMSGVHARSTSYSISYCTRKAANCAANMDSKA 294
AGGA SG + GL GG GL ++G T+ + A ++ D
Sbjct: 93 ---AGGAMLSGVLTIGLGAVGGETGL---IAGQAVGHTAGGVMGLGAGVAQRQSDQDKAI 146
Query: 295 AELRARG 301
A+L+ G
Sbjct: 147 ADLQQNG 153
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 33.0 bits (76), Expect = 0.30
Identities = 24/92 (26%), Positives = 34/92 (36%), Gaps = 3/92 (3%)
Query: 238 AGGAGASGKRSPGLNVPGGMMGLCSHMSGVHARSTSYSISYCTRKAANCAANMDSKAAEL 297
A GAS S G G G+ + + GV S + S R A+ A +M S
Sbjct: 315 AAAGGASSAYSAGAAGGSGAAGVAAGLGGVARAGASAAASPLRRAASRAAESMKSSFRAG 374
Query: 298 RARGVGISPGDLEARCGGTASPSAKYSPSLAR 329
G + G A A +A P+ A+
Sbjct: 375 ARSTGGGAGG---AAAAAAAGAAAAGPPAWAK 403
>gnl|CDD|224866 COG1955, FlaJ, Archaeal flagella assembly protein J [Cell motility
and secretion / Intracellular trafficking and
secretion].
Length = 527
Score = 32.7 bits (75), Expect = 0.38
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 165 FRALRVPINSRMLTDILSRLVETVAETGEDMQGYVT-ELLLTLESAVDALESDFRPLDHM 223
F A + P S +L D L RL + +GED++ ++ E T++ E LD
Sbjct: 111 FIAKKTP--SEILADFLDRLAYALD-SGEDLKEFLEREQDTTMDEYETEYERALESLDVW 167
Query: 224 KELFKS 229
K+++ S
Sbjct: 168 KDIYVS 173
>gnl|CDD|224647 COG1733, COG1733, Predicted transcriptional regulators
[Transcription].
Length = 120
Score = 30.8 bits (70), Expect = 0.42
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 17/94 (18%)
Query: 128 FRESLPHALISERWAQTALQLG-LSCGSRHYAGRSLQIFRALRVPINSRMLTDILSRLVE 186
E+L +I +W T L L L G + + ++ R++ I+ +ML+ L L E
Sbjct: 13 VEEAL--EVIGGKW--TLLILRDLFDGPKRFN----ELRRSIG-GISPKMLSRRLKELEE 63
Query: 187 ------TVAETGEDMQGY-VTELLLTLESAVDAL 213
V Y +TE L + AL
Sbjct: 64 DGLVERVVYPEEPPRVEYRLTEKGRDLLPVLLAL 97
>gnl|CDD|173123 PRK14660, acpS, 4'-phosphopantetheinyl transferase; Provisional.
Length = 125
Score = 29.8 bits (67), Expect = 0.95
Identities = 20/72 (27%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 272 TSYSISYCTRKA---ANCAANMDSKAAELRARGVGISPG----DLEARCGGTASPSAKYS 324
T I+YCT KA AA +K A ++A G G+ G D E P+ +
Sbjct: 32 TPGEIAYCTSKANRAERLAARFAAKEAVMKAIGTGLREGVRWTDFEVCRDERGRPTVRLH 91
Query: 325 PSLARSRSAMSG 336
A +A+
Sbjct: 92 GRAAEIAAALGA 103
>gnl|CDD|165668 PLN00095, PLN00095, chlorophyllide a oxygenase; Provisional.
Length = 394
Score = 30.8 bits (69), Expect = 1.4
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 10/84 (11%)
Query: 281 RKAANCAANMDSKAAELRARGVGISPGDLEARCGGTASPSAKYSPSL---ARSRSAMSGW 337
R A CAA S+AA RA+ G + AS A+ +P + + A + W
Sbjct: 18 RAEARCAAGARSRAA--RAQRAGAK--AKKGAVDDDASTRARGAPGVDGAGATADARAHW 73
Query: 338 YPPCFKS--LSQTKLVYF-LIEVP 358
+P F + + L+ F L VP
Sbjct: 74 FPVAFAAGLRDEDALIAFDLFNVP 97
>gnl|CDD|140324 PTZ00303, PTZ00303, phosphatidylinositol kinase; Provisional.
Length = 1374
Score = 30.4 bits (68), Expect = 1.8
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 275 SISYCTRKAANCAANMDSKAAELRARGVGISPGDL-EARCGGTASPSAKYSPSLARSRSA 333
++ C ++ +C A A RARG PG CG ASP+ PS A R A
Sbjct: 1197 AVEQCQQRQCSCFAGPSPAATSSRARGCASPPGSSGSGGCGSPASPTKAPEPSSAEIREA 1256
>gnl|CDD|148332 pfam06667, PspB, Phage shock protein B. This family consists of
several bacterial phage shock protein B (PspB)
sequences. The phage shock protein (psp) operon is
induced in response to heat, ethanol, osmotic shock and
infection by filamentous bacteriophages. Expression of
the operon requires the alternative sigma factor sigma54
and the transcriptional activator PspF. In addition,
PspA plays a negative regulatory role, and the
integral-membrane proteins PspB and PspC play a positive
one.
Length = 75
Score = 27.6 bits (62), Expect = 2.5
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 174 SRMLTDILSRLVETVAETGEDMQGYVTELLLTLESAVDALESDFRP 219
S+ L++ +L+E + ET E +Q E + TLE +DA ++RP
Sbjct: 33 SQGLSEEDEQLLEELLETAEKLQ----ERIQTLERILDAESPNWRP 74
>gnl|CDD|149916 pfam09002, DUF1887, Domain of unknown function (DUF1887). This
domain is found in a set of hypothetical bacterial
proteins.
Length = 379
Score = 29.8 bits (67), Expect = 2.8
Identities = 21/126 (16%), Positives = 39/126 (30%), Gaps = 27/126 (21%)
Query: 50 DPPPLIVVPEDEVTQPKSIALNPDVKNLDIQHVITSLVEFLSSKHNQVLWPYEDITAKVW 109
DPP LI D+ +P+ + + + ++ I +
Sbjct: 12 DPPNLITPLLDKRVRPEHAVFIGTEGQREQANRLLKALK------------IRGIDVDFF 59
Query: 110 TIRSG---EQLDIFLRHVLRLFRESLPHALISERWAQTALQLGLSCGSRHYAGRSLQIFR 166
I G E ++ L + E E L + G +H + ++FR
Sbjct: 60 EIPDGVDIEAIEEALLGLA----EEYKAG---EEVK-----LNATGGLKHMLLSAYEVFR 107
Query: 167 ALRVPI 172
+ PI
Sbjct: 108 SYHWPI 113
>gnl|CDD|119440 cd06578, HemD, Uroporphyrinogen-III synthase (HemD) catalyzes the
asymmetrical cyclization of tetrapyrrole (linear) to
uroporphyrinogen-III, the fourth step in the
biosynthesis of heme. This ubiquitous enzyme is present
in eukaryotes, bacteria and archaea. Mutations in the
human uroporphyrinogen-III synthase gene cause
congenital erythropoietic porphyria, a recessive inborn
error of metabolism also known as Gunther disease.
Length = 239
Score = 29.2 bits (66), Expect = 3.1
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 3/52 (5%)
Query: 102 EDITAKVWTIRSGEQLDIFLRHVLRLFRESLPHAL---ISERWAQTALQLGL 150
E+ S + L + + R L + I R A+ +LGL
Sbjct: 170 EEGAIDAVLFTSPSTVRNLLELLGKEGRALLKNVKIAAIGPRTAEALRELGL 221
>gnl|CDD|237883 PRK14991, PRK14991, tetrathionate reductase subunit A; Provisional.
Length = 1031
Score = 29.2 bits (66), Expect = 5.5
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 14/63 (22%)
Query: 293 KAAELRARGVGISPGDLEARCGGTASPSAK-----YSPSLARSRSAMSG--------WYP 339
+ A + ARG +P + A K ++ +A +R +M+G WYP
Sbjct: 811 RVAFIYARGGRFAPAE-SAYDEERMGNRWKKPLQIWNEDVAAARHSMTGERYSGCPTWYP 869
Query: 340 PCF 342
P
Sbjct: 870 PRL 872
>gnl|CDD|234925 PRK01233, glyS, glycyl-tRNA synthetase subunit beta; Validated.
Length = 682
Score = 28.9 bits (66), Expect = 6.3
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 282 KAANCAANMDSKAAELRARGVGISPGDLEAR 312
K A A +KAAE ARG G++ DLE R
Sbjct: 76 KIAFDADGNPTKAAEGFARGQGVTVDDLERR 106
>gnl|CDD|164925 PHA02524, 43A, DNA polymerase subunit A; Provisional.
Length = 498
Score = 28.8 bits (64), Expect = 6.3
Identities = 15/43 (34%), Positives = 22/43 (51%)
Query: 75 KNLDIQHVITSLVEFLSSKHNQVLWPYEDITAKVWTIRSGEQL 117
+ DI ++IT + L K L PY IT+K T GE++
Sbjct: 205 EGFDIPYIITRITNILGEKAANQLSPYGKITSKTITNLYGEKI 247
>gnl|CDD|234660 PRK00139, murE,
UDP-N-acetylmuramoylalanyl-D-glutamate--2,
6-diaminopimelate ligase; Provisional.
Length = 460
Score = 28.6 bits (65), Expect = 6.4
Identities = 10/64 (15%), Positives = 18/64 (28%), Gaps = 11/64 (17%)
Query: 125 LRLFRESLPHALI------SERWAQTALQLGLSCGSRHYAGRSLQIFRA-----LRVPIN 173
RLF E A+I R +S ++ + L +
Sbjct: 212 ARLFSELGLAAVINADDEVGRRLLALPDAYAVSMAGADLRATDVEYTDSGQTFTLVTEVE 271
Query: 174 SRML 177
S ++
Sbjct: 272 SPLI 275
>gnl|CDD|185772 cd09249, BRO1_Rhophilin_2, Protein-interacting Bro1-like domain of
RhoA-binding protein Rhophilin-2. This subfamily
contains the Bro1-like domain of RhoA-binding protein,
Rhophilin-2. It belongs to the BRO1_Alix_like
superfamily which also includes the Bro1-like domain of
mammalian Alix (apoptosis-linked gene-2 interacting
protein X), His-Domain type N23 protein tyrosine
phosphatase (HD-PTP, also known as PTPN23), RhoA-binding
protein Rhophilin-1, Brox, Bro1 and Rim20 (also known as
PalA) from Saccharomyces cerevisiae, Ustilago maydis
Rim23 (also known as PalC), and related domains.
Rhophilin-2, binds both GDP- and GTP-bound RhoA.
Bro1-like domains are boomerang-shaped, and part of the
domain is a tetratricopeptide repeat (TPR)-like
structure. In addition to this Bro1-like domain,
Rhophilin-2 contains an N-terminal Rho-binding domain
and a C-terminal PDZ (PS.D.-95, Disc-large, ZO-1)
domain. Roles for Rhophilin-2 may include limiting
stress fiber formation or increasing the turnover of
F-actin in the absence of high levels of RhoA signaling
activity. Rhophilin-2 lacks the V-shaped (V) domain
found in many members of the BRO1_Alix_like superfamily.
Length = 385
Score = 28.7 bits (64), Expect = 6.6
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 206 LESAVDALESDFRPLDHMKELFKSTPN 232
LESAVDA + L+++KE F TP+
Sbjct: 131 LESAVDAFQRAAGVLNYLKETFTHTPS 157
>gnl|CDD|163405 TIGR03693, ocin_ThiF_like, putative thiazole-containing bacteriocin
maturation protein. Members of this protein family are
found in a three-gene operon in Bacillus anthracis and
related Bacillus species, where the other two genes are
clearly identified with maturation of a putative
thiazole-containing bacteriocin precursor. While there
is no detectable pairwise sequence similarity between
members of this family and the proposed
cyclodehydratases such as SagC of Streptococcus pyogenes
(see family TIGR03603), both families show similarity
through PSI-BLAST to ThiF, a protein involved in
biosynthesis of the thiazole moiety for thiamine
biosynthesis. This family, therefore, may contribute to
cyclodehydratase function in heterocycle-containing
bacteriocin biosyntheses. In Bacillus licheniformis ATCC
14580, the bacteriocin precursor gene is adjacent to the
gene for this protein [Cellular processes, Toxin
production and resistance].
Length = 637
Score = 28.4 bits (63), Expect = 7.5
Identities = 30/145 (20%), Positives = 54/145 (37%), Gaps = 24/145 (16%)
Query: 100 PYEDITAKVWTIRSGEQL--DIFLRHVLRLFRESLPHALISERWAQTALQLGLSCGSRHY 157
PY+ +V+ I GE L + F+R V + PH L S + A Q+
Sbjct: 69 PYQK---RVFEI--GEILYKNGFVRDVSQ----DAPHELESALLDRYAAQIEFIEADADS 119
Query: 158 AGRSLQIFRALRVPI--NSRMLTDILSRLVET-----------VAETGEDMQGYVTELLL 204
++ R ++ + LT ++ L+++ E D + E+
Sbjct: 120 GALKFELSRNAKILAAGSGDFLTKLVRSLIDSGFPRFHAIVTDAEEHALDRIHELAEIAE 179
Query: 205 TLESAVDALESDFRPLDHMKELFKS 229
+ A+ E DF H+ E F+
Sbjct: 180 ETDDALLVQEIDFAEDQHLHEAFEP 204
>gnl|CDD|215370 PLN02686, PLN02686, cinnamoyl-CoA reductase.
Length = 367
Score = 28.2 bits (63), Expect = 8.9
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 254 PGGMMGLCSHMSGVHARSTSYSISYCTR 281
P G+ G M+ + A+++ I C R
Sbjct: 141 PAGLSGYTKSMAELEAKASENVIEACVR 168
>gnl|CDD|152598 pfam12163, HobA, DNA replication regulator. This family of
proteins is found exclusively in epsilon-proteobacteria.
Proteins in this family are approximately 180 amino
acids in length. The structure of HobA is a modified
Rossmann fold consisting of a five-stranded parallel
beta-sheet (beta1-5) flanked on one side by alpha-2,
alpha-3 and alpha-6 helices and alpha-4 and alpha-5 on
the other. The alpha-1 helix is extended away from and
has minimal interaction with the globular part of the
protein. Four monomers interact to form a tetrameric
molecule. Four calcium atoms bind to the tetramer and
these binding sites may have functional relevance. The
function of HobA is to regulate DNA replication and its
does this by binding to DNA-A, but the exact mechanism
of how this regulation occurs is purely speculative.
Length = 180
Score = 27.6 bits (62), Expect = 9.3
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 83 ITSLVEFLSSKHNQVLWPYEDITAKVWTIRS-GEQLDIFLRHVLRLFRESLPHALISE 139
+ SK + LW +++ + ++S E LD L + +LF +SL AL E
Sbjct: 120 NDGRAKIAKSKDDSFLWIFDEQLQNSFYLKSSDELLDYKLLQLFKLFDKSLDAALFGE 177
>gnl|CDD|145556 pfam02478, Pneumo_phosprot, Pneumovirus phosphoprotein. This
family represents the phosphoprotein of
Paramyxoviridae, a putative RNA polymerase alpha
subunit that may function in template binding.
Length = 266
Score = 27.9 bits (62), Expect = 9.5
Identities = 10/68 (14%), Positives = 16/68 (23%), Gaps = 9/68 (13%)
Query: 9 GLSTPPTHVTQHNFTDPDPEFDRYLSSSSDHIVSTPTPNKPDPPPLIVVPEDEVTQPKSI 68
+S + F P S K + + V + E K +
Sbjct: 33 SISGEKVNTISEKFELPTI---------SKPTTPKGPCIKDEIISVNKVKDIESIYEKPV 83
Query: 69 ALNPDVKN 76
D K
Sbjct: 84 TPTSDGKT 91
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
0.317 0.132 0.395
Gapped
Lambda K H
0.267 0.0561 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,836,602
Number of extensions: 1885221
Number of successful extensions: 1750
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1745
Number of HSP's successfully gapped: 28
Length of query: 396
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 297
Effective length of database: 6,546,556
Effective search space: 1944327132
Effective search space used: 1944327132
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 (21.6 bits)
S2: 60 (27.3 bits)