RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6009
(866 letters)
>gnl|CDD|150245 pfam09506, Salt_tol_Pase, Glucosylglycerol-phosphate phosphatase
(Salt_tol_Pase). Proteins in this family are
glucosylglycerol-phosphate phosphatases, with the gene
symbol stpA (Salt Tolerance Protein A). A motif
characteristic of acid phosphatases is found, but
otherwise this family shows little sequence similarity
to other phosphatases. This enzyme acts on the
glucosylglycerol phosphate, product of glucosylglycerol
phosphate synthase and immediate precursor of the
osmoprotectant glucosylglycerol.
Length = 381
Score = 33.8 bits (78), Expect = 0.40
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 4/83 (4%)
Query: 288 ARVPH---QEDTEIVPEILENLTDEELKKEAKNESKNDAISVIIKSCKLLAARVPHQEDT 344
A VP E +P IL L++EE+ K A+ + +S I + L + VP +
Sbjct: 106 AAVPARMEALLKERLPSILPELSEEEIAKLAQAAILDTRVSPTI-NLNSLFSLVPDDVEK 164
Query: 345 VKQLEIFRLKIILRLLQISSFNG 367
+QL+ +++ +LL + G
Sbjct: 165 QRQLQQMLEELMDQLLAEAEAQG 187
>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
Length = 871
Score = 32.6 bits (75), Expect = 1.0
Identities = 26/138 (18%), Positives = 52/138 (37%), Gaps = 9/138 (6%)
Query: 203 FQILLERFQNKSTLTIPVIFALIRPFGQVHEYLTLPTILKYFMPILEIV-PEILENLTDE 261
FQ+ P+ A R F + L P K + +L + P + + LT
Sbjct: 349 FQLTTMDSPA------PMGEAGGRLFYDITNLLASPAGRKLLINMLGVSDPLMKDALTTL 402
Query: 262 ELKKEAKNESKNDAISVIIKSCKLLAARVPHQEDTEIVPEILENLTD--EELKKEAKNES 319
+K+ ++ S L ++ + D IV E++ ELK++ + +S
Sbjct: 403 IKRKDFIKLLPKGKAALKSISKFLPIIQIYFENDPAIVEELIARSEASIAELKQDIQTKS 462
Query: 320 KNDAISVIIKSCKLLAAR 337
++ I++ + L
Sbjct: 463 GDELFDFILEDIQQLKDI 480
>gnl|CDD|234325 TIGR03713, acc_sec_asp1, accessory Sec system protein Asp1. This
protein is designated Asp1 because, along with SecY2,
SecA2, and other proteins it is part of the accessory
secretory protein system. The system is involved in the
export of serine-rich glycoproteins important for
virulence in a number of Gram-positive species,
including Streptococcus gordonii and Staphylococcus
aureus. This protein family is assigned to transport
rather than glycosylation function, but the specific
molecular role is unknown [Protein fate, Protein and
peptide secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 519
Score = 32.4 bits (74), Expect = 1.3
Identities = 27/127 (21%), Positives = 54/127 (42%), Gaps = 23/127 (18%)
Query: 255 LENLTDEELKKE----AKNESKNDAISVIIKSCKLLAARVPHQEDTEIVPEILENLTDE- 309
++ L+DEEL++ + KN + I + + T+++ +ILE + +E
Sbjct: 327 IDGLSDEELQQILQQLLQYILKNPDYELKILT------YNNDNDITQLLEDILEQINEEY 380
Query: 310 ELKKEAKNESKNDAISVIIKS-------CKLLAARVPHQEDTVKQLEIFRLKIILRL--- 359
K + S+ D I+++ ++ + ++ED + L+ RL I L
Sbjct: 381 NQDKNFFSLSEQDENQPILQTDEEQKEKERIAFTTLTNEEDLISALDKLRLIIDLSKEPD 440
Query: 360 --LQISS 364
QIS
Sbjct: 441 LYTQISG 447
>gnl|CDD|236223 PRK08294, PRK08294, phenol 2-monooxygenase; Provisional.
Length = 634
Score = 32.3 bits (74), Expect = 1.4
Identities = 24/64 (37%), Positives = 30/64 (46%), Gaps = 19/64 (29%)
Query: 783 GLSHTYRPILPEARQIWTALAQEAI-FHCDREACFKWFSKLM---TDEPDL-DPKMMKDF 837
L HTY RQ A+AQE I F DRE +S +M E DP ++D+
Sbjct: 385 ELLHTYS----AERQ---AIAQELIDF--DRE-----WSTMMAAPPKEGGGVDPAELQDY 430
Query: 838 FEKH 841
F KH
Sbjct: 431 FVKH 434
>gnl|CDD|220550 pfam10070, DUF2309, Uncharacterized protein conserved in bacteria
(DUF2309). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 783
Score = 32.2 bits (74), Expect = 1.4
Identities = 29/143 (20%), Positives = 49/143 (34%), Gaps = 27/143 (18%)
Query: 409 VLEIVLRDSLHQPQYVEKLEKILRFLIKEKALS--LGDLDAVWAAQAGK--HDAIVKNVH 464
LE L ++L LE +L L++E A+ L L + + +G D V
Sbjct: 67 DLEAALAEALADSGLPADLEALLAALLQEDAVPPRLPTLADLLDSLSGIDWPDE----VD 122
Query: 465 ELLAKLAWDFSPVQLDHLFVCFQASWTSANRKQTEKLLELIRRLAEDDKD------GVMA 518
E ++K + D QA W R++ R LA D
Sbjct: 123 EQISKWCAAY----FDE----GQALWRMPGREKG--FYAAWRELARHDLGLEILGLRGFR 172
Query: 519 DKVLNLFWSLAHSDDVMTDIMEQ 541
+V L ++ + +E+
Sbjct: 173 RRVAEL---PDDPEEAIARALER 192
>gnl|CDD|213919 TIGR04306, salvage_TenA, thiaminase II. The TenA protein of
Bacillus subtilis and Staphylococcus aurues, and the
C-terminal region of trifunctional protein Thi20p from
Saccharomyces cerevisiae, perform cleavages on thiamine
and related compounds to produce
4-amino-5-hydroxymethyl-2-methylpyrimidine (HMP), a
substrate a salvage pathway for thiamine biosynthesis.
The gene symbol tenA, for Transcription ENhancement A,
reflects a misleading early characterization as a
regulatory protein. This family is related to PqqC from
the PQQ biosynthesis system (see TIGR02111), heme
oxygenase (pfam01126), and CADD (Chlamydia protein
Associating with Death Domains), a putative folate
metabolism enzyme (see TIGR04305).
Length = 208
Score = 31.0 bits (70), Expect = 2.0
Identities = 9/48 (18%), Positives = 21/48 (43%)
Query: 526 WSLAHSDDVMTDIMEQALASHLKILDYSCSQERDKQKTIWLQTCIEEF 573
W +S + + + + + S +E +K K I+ ++C E+
Sbjct: 152 WIETYSSSWFREAVNEGENLLNHLAETSSPEELEKLKEIFAESCEYEY 199
>gnl|CDD|180426 PRK06148, PRK06148, hypothetical protein; Provisional.
Length = 1013
Score = 31.9 bits (73), Expect = 2.0
Identities = 20/55 (36%), Positives = 21/55 (38%), Gaps = 17/55 (30%)
Query: 456 HDAIVKNVHELLAKLAWDFSPVQLDHLFVCFQA-SWTSANRKQTEKLLELIRRLA 509
HDAIV L A L P D L V F S + AN L RLA
Sbjct: 662 HDAIVAYAERLTATL-----P---DGLTVAFFVNSGSEAN--------SLALRLA 700
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 31.2 bits (71), Expect = 3.2
Identities = 34/164 (20%), Positives = 69/164 (42%), Gaps = 16/164 (9%)
Query: 356 ILRLLQISSFNGKMNALNEVNKVIAGVAYYPHRHPEEEWLTPDRMAKWIKDNNVLEIVLR 415
IL L+ S + + L+ +K + A ++ + +L PD+ A + D + L
Sbjct: 349 ILFGLR-SRYEKH-HNLSISDKALEAAAKLSDQYIADRFL-PDK-AIDLLDEAGSRVRLI 404
Query: 416 DSLHQPQYVEKLEKILRFLIKEKALSLGDLDAVWAAQAGKHDAIVKNVHELLAKLAWDFS 475
+S P +L+K LR ++K+K ++ + D A Q + V+ + +
Sbjct: 405 NS-RLPPAARELDKELREILKDKDEAIREQDFETAKQLRDREMEVRAQIAAIIQSKKTEE 463
Query: 476 PVQLDHLFVCFQ------ASWTS-----ANRKQTEKLLELIRRL 508
+L+ V + ++WT + ++EKLL + L
Sbjct: 464 EKRLEVPVVTEEDIAEIVSAWTGIPVNKLTKSESEKLLHMEETL 507
>gnl|CDD|220789 pfam10508, Proteasom_PSMB, Proteasome non-ATPase 26S subunit. The
26S proteasome, a eukaryotic ATP-dependent, dumb-bell
shaped, protease complex with a molecular mass of approx
20kDa consists of a central 20S proteasome,functioning
as a catalytic machine, and two large V-shaped terminal
modules, having possible regulatory roles,composed of
multiple subunits of 25- 110 kDa attached to the central
portion in opposite orientations. It is responsible for
degradation of abnormal intracellular proteins,
including oxidatively damaged proteins, and may play a
role as a component of a cellular anti-oxidative system.
Expression of catalytic core subunits including PSMB5
and peptidase activities of the proteasome were elevated
following incubation with 3-methylcholanthrene. The 20S
proteasome comprises a cylindrical stack of four rings,
two outer rings formed by seven alpha-subunits
(alpha1-alpha7) and two inner rings of seven
beta-subunits (beta1-beta7). Two outer rings of alpha
subunits maintain structure, while the central beta
rings contain the proteolytic active core subunits beta1
(PSMB6), beta2 (PSMB7), and beta5 (PSMB5). Expression of
PSMB5 can be altered by chemical reactants, such as
3-methylcholanthrene.
Length = 504
Score = 30.1 bits (68), Expect = 5.5
Identities = 25/141 (17%), Positives = 53/141 (37%), Gaps = 26/141 (18%)
Query: 253 EILENLTDEELKKEAKNESKNDAISV---------IIKSCKLLAARVPHQEDTEIVPEIL 303
++L NL+ + EA E + ++ I + ++E T + EIL
Sbjct: 7 DLLSNLSSKPEILEALTELSSAISAIPNLEALPLQIAEDQLFNCLNTNNREQTTLCLEIL 66
Query: 304 ENLTDEELKKEAKNESKNDAISVIIKSCKLLAARVPHQEDTVKQLEIFRLKIILRLLQIS 363
+ + + + V+ + +PH V+ LK +LR++Q
Sbjct: 67 KRILKTLAPDDL----IPNYQVVLQEG-------LPHPTPAVR---ALVLKELLRIVQ-- 110
Query: 364 SFNGKMNALNEVNKVIAGVAY 384
S G + L ++++ +A
Sbjct: 111 SKEGALELLKN-EELLSLIAD 130
>gnl|CDD|233255 TIGR01061, parC_Gpos, DNA topoisomerase IV, A subunit,
Gram-positive. Operationally, topoisomerase IV is a
type II topoisomerase required for the decatenation of
chromosome segregation. Not every bacterium has both a
topo II and a topo IV. The topo IV families of the
Gram-positive bacteria and the Gram-negative bacteria
appear not to represent a single clade among the type II
topoisomerases, and are represented by separate models
for this reason [DNA metabolism, DNA replication,
recombination, and repair].
Length = 738
Score = 30.2 bits (68), Expect = 6.3
Identities = 25/133 (18%), Positives = 57/133 (42%), Gaps = 12/133 (9%)
Query: 250 IVPEILENLTDEELK--KEAKNESKNDAISVIIKSCKLLAARVPHQEDTEIVPEILENLT 307
IV +I E + D ++ +E ++ES + I +II+ K + E + L T
Sbjct: 265 IVKKIEEIIFDNKVAGIEEVRDESDRNGIRIIIELKKDA--------NAEKILNFLFKHT 316
Query: 308 DEELKKEAKNESKNDAISVIIKSCKLLAARVPHQEDTVKQLEIFRLKIILRLLQISSFNG 367
D ++ + + + + L A + H + + + L+ + L+I G
Sbjct: 317 DLQINYNFNMVAIANRTPIQVGLLSYLDAYIKHCHEVIINRSKYELEKASKRLEI--VEG 374
Query: 368 KMNALNEVNKVIA 380
+ A++ ++++I
Sbjct: 375 LIKAISIIDEIIK 387
>gnl|CDD|181661 PRK09124, PRK09124, pyruvate dehydrogenase; Provisional.
Length = 574
Score = 30.0 bits (68), Expect = 6.3
Identities = 24/76 (31%), Positives = 30/76 (39%), Gaps = 17/76 (22%)
Query: 746 KEVSTHLGPKLQSSLTQFHKTFIAECLDRLRAHYDTI--GL------SHTYRPILPE--A 795
K L P L+ + LD+ HY GL S +PI P+ A
Sbjct: 313 KATLAALLPLLEEKTDRKF-------LDKALEHYRKARKGLDDLAVPSDGGKPIHPQYLA 365
Query: 796 RQIWTALAQEAIFHCD 811
RQI A +AIF CD
Sbjct: 366 RQISEFAADDAIFTCD 381
>gnl|CDD|234924 PRK01229, PRK01229, N-glycosylase/DNA lyase; Provisional.
Length = 208
Score = 29.5 bits (67), Expect = 6.7
Identities = 18/55 (32%), Positives = 36/55 (65%), Gaps = 3/55 (5%)
Query: 402 KWIKDNNVLEIVLRDSLHQPQYVEKLEKILRFLIKEKALSLGDLDAV-WAAQAGK 455
+++K ++E + + +L + +Y+E +E+ILR + +E +SLG+LD W + GK
Sbjct: 153 RFLKRYGLIEEIPK-TLSKKRYLE-IEEILREIAEELGISLGELDLYIWYKETGK 205
>gnl|CDD|116948 pfam08367, M16C_assoc, Peptidase M16C associated. This domain
appears in eukaryotes as well as bacteria and tends to
be found near the C-terminus of the metalloprotease M16C
(pfam05193).
Length = 248
Score = 29.5 bits (67), Expect = 6.9
Identities = 12/69 (17%), Positives = 24/69 (34%), Gaps = 17/69 (24%)
Query: 249 EIVPEILENLTDEELKKEAKNESKNDAISVIIKSCKLLAARVPHQEDTEIVPEILENLTD 308
E + + +L++E+ +K II+ L ED +P LT
Sbjct: 17 EKLEKKKSSLSEEDKEK-------------IIERGLELEELQSTPEDLSCLP----TLTL 59
Query: 309 EELKKEAKN 317
++ +
Sbjct: 60 SDIPRSGDE 68
>gnl|CDD|218986 pfam06317, Arena_RNA_pol, Arenavirus RNA polymerase. This family
consists of several Arenavirus RNA polymerase proteins
(EC:2.7.7.48).
Length = 2206
Score = 30.0 bits (68), Expect = 7.9
Identities = 25/67 (37%), Positives = 32/67 (47%), Gaps = 11/67 (16%)
Query: 639 SLLQISSFNGKMNALNEVNKVIAGVAYYPHRHPEEEWLTPDRQLTESGLKCFEKF----- 693
LL I G + K + V+Y H +E TPDR LT+ +KCFEKF
Sbjct: 676 DLLNIVLGEGVDTDMTNRFKFVLNVSYLCHLITKE---TPDR-LTDQ-IKCFEKFLEPKL 730
Query: 694 -FKSVNI 699
F SVN+
Sbjct: 731 KFGSVNV 737
>gnl|CDD|220287 pfam09546, Spore_III_AE, Stage III sporulation protein AE
(spore_III_AE). This represents the stage III
sporulation protein AE, which is encoded in a spore
formation operon spoIIIAABCDEFGH under the control of
sigma G. A comparative genome analysis of all sequenced
genomes of Firmicutes shows that the proteins are
strictly conserved among the sub-set of
endospore-forming species.
Length = 328
Score = 29.4 bits (67), Expect = 7.9
Identities = 20/69 (28%), Positives = 28/69 (40%), Gaps = 14/69 (20%)
Query: 193 LINLFGSMGGFQILLERFQNKSTLTIPVIFALIRPFGQVHEYLTLPTILKYFMPILEIVP 252
L+ L S GG + P+I LI G V + LP I + L+IV
Sbjct: 114 LLTLLASSGGI--------TSAAFFHPIILGLINISGTVIKNFVLPLIFLSAV--LQIV- 162
Query: 253 EILENLTDE 261
NL++E
Sbjct: 163 ---NNLSEE 168
>gnl|CDD|163523 TIGR03811, tyr_de_CO2_Ent, tyrosine decarboxylase, Enterococcus
type. This model represents tyrosine decarboxylases in
the family of the Enterococcus faecalis enzyme Tdc.
These enzymes often are encoded next to
tyrosine/tyramine antiporter, together comprising a
system in which tyrosine decarboxylation can protect
against exposure to acid conditions. This clade differs
from the archaeal tyrosine decarboxylases associated
with methanofuran biosynthesis [Cellular processes,
Adaptations to atypical conditions].
Length = 608
Score = 29.8 bits (67), Expect = 8.0
Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 8/86 (9%)
Query: 393 EWLTPD-RMAKWIKDNNVLEIVLRDSLHQP---QY---VEKLEKILRFLIKEKALSLGDL 445
+WL P + W+K +++ I L + P Y + +LEKI+R L EK LG +
Sbjct: 224 KWLVPQTKHYSWLKAADIIGIGLDQVIPVPVDSNYRMDINELEKIIRKLAAEKTPILGVV 283
Query: 446 DAVWAAQAGKHDAIVKNVHELLAKLA 471
V + + G D I K V L KL
Sbjct: 284 GVVGSTEEGAVDGIDKIV-ALRNKLM 308
>gnl|CDD|183059 PRK11253, ldcA, L,D-carboxypeptidase A; Provisional.
Length = 305
Score = 29.2 bits (66), Expect = 8.4
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 213 KSTLTIPVIFALIRPFGQVHEYLTLP 238
+S L+IPVI L FG +TLP
Sbjct: 256 RSRLSIPVITGL--DFGHEQRTVTLP 279
>gnl|CDD|233618 TIGR01887, dipeptidaselike, dipeptidase, putative. This model
represents a clade of probable zinc dipeptidases,
closely related to the characterized non-specific
dipeptidase, PepV. Many enzymes in this clade have been
given names including the terms "Xaa-His" and
"carnosinase" due to the early mis-characterization of
the Lactobacillus delbrueckii PepV enzyme. These names
are likely too specific.
Length = 447
Score = 29.3 bits (66), Expect = 9.0
Identities = 11/73 (15%), Positives = 27/73 (36%), Gaps = 4/73 (5%)
Query: 364 SFNGKMNALNEVNKVIAGVAYYPHRHPEEEWLTPDRMAKWIKDNNVLEIVLRDSLHQPQY 423
+ N + + G+ R+P + + + + V + +P Y
Sbjct: 315 TMNVGVIDYENAEAGLIGLNV---RYPVGNDPD-TMLKNELAKESGVVEVTLNGYLKPLY 370
Query: 424 VEKLEKILRFLIK 436
V K + +++ L+K
Sbjct: 371 VPKDDPLVQTLMK 383
>gnl|CDD|185521 PTZ00235, PTZ00235, DNA polymerase epsilon subunit B; Provisional.
Length = 291
Score = 29.2 bits (65), Expect = 9.4
Identities = 36/162 (22%), Positives = 60/162 (37%), Gaps = 37/162 (22%)
Query: 31 CTCKFPVEKLAILDSKISSSRWVVPVLPEQELECLIKAAIELCKTNSDVDSEPCQ-RFFR 89
C CK + K+ IL I +Q +E K N + PC+ R
Sbjct: 122 CACKNSIPKMPILPYYIRKF--------KQNIESFFS-----SKRNIIFATNPCRIRHLS 168
Query: 90 EGLSISFTKILTDDAVHSWKYNIHNCIYNNCQKLLELIVLKLGQD--------------- 134
+ + I F + +D + S N N NN Q +L + +GQ
Sbjct: 169 KKM-IFFRHDILNDLIWSSTINATNNERNNLQNIL--VSTIVGQSHIYPIPHDNRILKRY 225
Query: 135 -----VFPLLDILTMVFNPCNKFHTFNSNQQSISVPVNSNIA 171
++PL + + N CN F ++ S S + NS+++
Sbjct: 226 SPFLFLYPLPHFICVCDNSCNSFISYASEDTSDCIISNSDMS 267
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
0.320 0.136 0.407
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 44,808,033
Number of extensions: 4490749
Number of successful extensions: 4583
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4571
Number of HSP's successfully gapped: 48
Length of query: 866
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 761
Effective length of database: 6,280,432
Effective search space: 4779408752
Effective search space used: 4779408752
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (28.1 bits)