RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780773|ref|YP_003065186.1| zinc metallopeptidase
[Candidatus Liberibacter asiaticus str. psy62]
(349 letters)
>gnl|CDD|161683 TIGR00054, TIGR00054, RIP metalloprotease RseP. A model that
detects fragments as well matches a number of members of
the PEPTIDASE FAMILY S2C. The region of match appears
not to overlap the active site domain.
Length = 420
Score = 121 bits (305), Expect = 3e-28
Identities = 76/228 (33%), Positives = 116/228 (50%), Gaps = 12/228 (5%)
Query: 120 PVVSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEVAPYVRENPLHEISLVLYREHVGV 179
PV+S+V+P SPA AG+K+GD I S++G + ++ + V+ENP + + + R
Sbjct: 205 PVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTDFVSAVKENPGKSMDIKVERNG-ET 263
Query: 180 LHLKVMPRLQDTVDRFGIKRQVPSVGISFSYDETKLHSRTVLQSFSRGLDEISSITRGFL 239
L + + P + + +GIS S S +L +F++G I + L
Sbjct: 264 LSISLTPEAKGKI----------GIGISPSL-APLEVSYGILNAFAKGASATVDIVKLIL 312
Query: 240 GVLSSAFGKDTRLNQISGPVGIARIAKNFFDHGFNAYIAFLAMFSWAIGFMNLLPIPILD 299
L +L +SGPVGI + A + + G + F A S +G MNLLPIP LD
Sbjct: 313 TNLGKLITGSFKLKNLSGPVGIVKGAGSSANSGIVYLLQFGAFLSINLGIMNLLPIPALD 372
Query: 300 GGHLITFLLEMIRGKSLGVSVTRVITRMGLCIILFLFFLGIRNDIYGL 347
GG L+ +E IRGK L V + R+G+ +LFL LG+ ND+ L
Sbjct: 373 GGQLLFLFIEAIRGKPLPEKVQAFVYRIGVAFLLFLMGLGLFNDLLRL 420
Score = 104 bits (261), Expect = 3e-23
Identities = 57/165 (34%), Positives = 94/165 (56%), Gaps = 19/165 (11%)
Query: 9 LYTVSLII----IVVIHEFGHYMVARLCNIRVLSFSVGFGPELIGITSRSGVRWKVSLIP 64
L+ ++ I+ ++ +HE GH++ ARLC I+V FS+GFGP+++ ++G + +SLIP
Sbjct: 4 LWILASILALAVLIFVHELGHFLAARLCGIKVERFSIGFGPKILKF-KKNGTEYAISLIP 62
Query: 65 LGGYVSFSEDEKDMR---------SFFCAAPWKKILTVLAGPLANCVMAILFFTFFFYNT 115
LGGYV +K+M F + ++K + + AGPLAN + AI F F
Sbjct: 63 LGGYVKMKGLDKEMEVKPPETDGDLFNNKSVFQKAIIIFAGPLANFIFAI-FVYIFISLI 121
Query: 116 GV----MKPVVSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEV 156
GV + PV+ + S A AG++ GD I+S++G + F++V
Sbjct: 122 GVPGYEVGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKDV 166
>gnl|CDD|182723 PRK10779, PRK10779, zinc metallopeptidase RseP; Provisional.
Length = 449
Score = 99.4 bits (248), Expect = 1e-21
Identities = 54/148 (36%), Positives = 83/148 (56%), Gaps = 10/148 (6%)
Query: 10 YTVSLIIIVVIHEFGHYMVARLCNIRVLSFSVGFGPELIGITSRSGVRWKVSLIPLGGYV 69
+ V+L +++ +HEFGH+ VAR C +RV FS+GFG L T R G + ++LIPLGGYV
Sbjct: 10 FIVALGVLITVHEFGHFWVARRCGVRVERFSIGFGKALWRRTDRQGTEYVIALIPLGGYV 69
Query: 70 SFSED-------EKDMRSFFCAAPWKKILTVLAGPLANCVMAILFFTFFFYNTGV--MKP 120
++ E +F ++ + AGP+AN + AI + F GV ++P
Sbjct: 70 KMLDERVEPVAPELRHHAFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVFI-IGVPGVRP 128
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGI 148
VV ++P S AA A + G + ++DGI
Sbjct: 129 VVGEIAPNSIAAQAQIAPGTELKAVDGI 156
Score = 95.1 bits (237), Expect = 2e-20
Identities = 75/231 (32%), Positives = 119/231 (51%), Gaps = 15/231 (6%)
Query: 120 PVVSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEVAPYVRENPLHEISLVLYREHVGV 179
PV++ V P S A+ AG++ GD I+ +DG ++ ++ VR+NP ++L + R
Sbjct: 223 PVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQTFVTLVRDNPGKPLALEIER-QGSP 281
Query: 180 LHLKVMPRLQDTVDRF-GIKRQVPSVGISFSYDETKLHSRTVLQ--SFSRGLDEISSITR 236
L L + P + + G VP V I DE K TV Q FS + E + T
Sbjct: 282 LSLTLTPDSKPGNGKAEGFAGVVPKV-IPLP-DEYK----TVRQYGPFS-AIYEATDKTW 334
Query: 237 GFLGVLSSAFGK----DTRLNQISGPVGIARIAKNFFDHGFNAYIAFLAMFSWAIGFMNL 292
+ + S GK D +LN +SGP+ IA+ A ++G Y+ FLA+ S +G +NL
Sbjct: 335 QLMKLTVSMLGKLITGDVKLNNLSGPISIAQGAGMSAEYGLVYYLMFLALISVNLGIINL 394
Query: 293 LPIPILDGGHLITFLLEMIRGKSLGVSVTRVITRMGLCIILFLFFLGIRND 343
P+P+LDGGHL+ +E ++G + V R+G +++ L L + ND
Sbjct: 395 FPLPVLDGGHLLFLAIEKLKGGPVSERVQDFSYRIGSILLVLLMGLALFND 445
>gnl|CDD|128524 smart00228, PDZ, Domain present in PSD-95, Dlg, and ZO-1/2. Also
called DHR (Dlg homologous region) or GLGF (relatively
well conserved tetrapeptide in these domains). Some PDZs
have been shown to bind C-terminal polypeptides; others
appear to bind internal (non-C-terminal) polypeptides.
Different PDZs possess different binding specificities.
Length = 85
Score = 45.4 bits (108), Expect = 2e-05
Identities = 20/57 (35%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGITVSAF--EEVAPYVRENPLHEISLVLYRE 175
VVS+V P SPAA AG+K GD I+ ++G +V E +++ +++L + R
Sbjct: 29 VVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKAG-GKVTLTVLRG 84
>gnl|CDD|162670 TIGR02037, degP_htrA_DO, periplasmic serine protease, Do/DeqQ
family. This family consists of a set proteins various
designated DegP, heat shock protein HtrA, and protease
DO. The ortholog in Pseudomonas aeruginosa is designated
MucD and is found in an operon that controls mucoid
phenotype. This family also includes the DegQ (HhoA)
paralog in E. coli which can rescue a DegP mutant, but
not the smaller DegS paralog, which cannot. Members of
this family are located in the periplasm and have
separable functions as both protease and chaperone.
Members have a trypsin domain and two copies of a PDZ
domain. This protein protects bacteria from thermal and
other stresses and may be important for the survival of
bacterial pathogens.// The chaperone function is
dominant at low temperatures, whereas the proteolytic
activity is turned on at elevated temperatures.
Length = 428
Score = 42.6 bits (101), Expect = 2e-04
Identities = 16/39 (41%), Positives = 26/39 (66%)
Query: 122 VSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEVAPYV 160
V+ V P SPA AG+K GD I+S++G +S+F ++ +
Sbjct: 261 VAQVLPGSPAEKAGLKAGDVILSVNGKPISSFADLRRAI 299
Score = 38.7 bits (91), Expect = 0.002
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEV 156
VV+ V SPAA AG++ GD I+S++ VS+ E+
Sbjct: 365 VVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAEL 400
>gnl|CDD|182855 PRK10942, PRK10942, serine endoprotease; Provisional.
Length = 473
Score = 41.7 bits (98), Expect = 3e-04
Identities = 18/32 (56%), Positives = 22/32 (68%)
Query: 122 VSNVSPASPAAIAGVKKGDCIISLDGITVSAF 153
VS V P S AA AG+K GD I SL+G +S+F
Sbjct: 315 VSQVLPNSSAAKAGIKAGDVITSLNGKPISSF 346
Score = 33.2 bits (76), Expect = 0.091
Identities = 18/31 (58%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 114 NTGVMKPV-VSNVSPASPAAIAGVKKGDCII 143
N G K V V NV P +PAA G+KKGD II
Sbjct: 403 NKGGDKGVVVDNVKPGTPAAQIGLKKGDVII 433
>gnl|CDD|182262 PRK10139, PRK10139, serine endoprotease; Provisional.
Length = 455
Score = 38.4 bits (89), Expect = 0.002
Identities = 18/35 (51%), Positives = 24/35 (68%)
Query: 122 VSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEV 156
VS V P S +A AGVK GD I SL+G +++F E+
Sbjct: 294 VSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAEL 328
>gnl|CDD|182820 PRK10898, PRK10898, serine endoprotease; Provisional.
Length = 353
Score = 38.1 bits (89), Expect = 0.003
Identities = 17/35 (48%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGI-TVSAFE 154
VV+ VSP PAA AG++ D IIS++ +SA E
Sbjct: 282 VVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALE 316
>gnl|CDD|162671 TIGR02038, protease_degS, periplasmic serine pepetdase DegS. This
family consists of the periplasmic serine protease DegS
(HhoB), a shorter paralog of protease DO (HtrA, DegP)
and DegQ (HhoA). It is found in E. coli and several
other Proteobacteria of the gamma subdivision. It
contains a trypsin domain and a single copy of PDZ
domain (in contrast to DegP with two copies). A critical
role of this DegS is to sense stress in the periplasm
and partially degrade an inhibitor of sigma(E).
Length = 351
Score = 36.0 bits (83), Expect = 0.014
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGITVSAFEEVAPYVRE 162
V++ V P PAA AG+ D I+ DG V EE+ + E
Sbjct: 281 VITGVDPNGPAARAGILVRDVILKYDGKDVIGAEELMDRIAE 322
>gnl|CDD|163044 TIGR02860, spore_IV_B, stage IV sporulation protein B. SpoIVB, the
stage IV sporulation protein B of endospore-forming
bacteria such as Bacillus subtilis, is a serine
proteinase, expressed in the spore (rather than mother
cell) compartment, that participates in a proteolytic
activation cascade for Sigma-K. It appears to be
universal among endospore-forming bacteria and occurs
nowhere else.
Length = 402
Score = 35.8 bits (83), Expect = 0.016
Identities = 11/46 (23%), Positives = 26/46 (56%)
Query: 129 SPAAIAGVKKGDCIISLDGITVSAFEEVAPYVRENPLHEISLVLYR 174
SP AG++ GD I+ ++G + +++A + + +++L + R
Sbjct: 124 SPGEEAGIQIGDRILKINGEKIKNMDDLANLINKAGGEKLTLTIER 169
>gnl|CDD|161775 TIGR00225, prc, C-terminal peptidase (prc). A C-terminal peptidase
with different substrates in different species including
processing of D1 protein of the photosystem II reaction
center in higher plants and cleavage of a peptide of 11
residues from the precursor form of penicillin-binding
protein in E.coli E.coli and H influenza have the most
distal branch of the tree and their proteins have an
N-terminal 200 amino acids that show no homology to
other proteins in the database.
Length = 334
Score = 32.7 bits (75), Expect = 0.15
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 118 MKP-VVSNVSP--ASPAAIAGVKKGDCIISLDGITV 150
M + VSP SPA AG+K GD II ++G +V
Sbjct: 59 MDDGEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSV 94
>gnl|CDD|177681 PLN00049, PLN00049, carboxyl-terminal processing protease;
Provisional.
Length = 389
Score = 32.0 bits (73), Expect = 0.24
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 121 VVSNVSPASPAAIAGVKKGDCIISLDGITV 150
VV +P PAA AG++ GD I+++DG +
Sbjct: 105 VVVAPAPGGPAARAGIRPGDVILAIDGTST 134
>gnl|CDD|183852 PRK13030, PRK13030, 2-oxoacid ferredoxin oxidoreductase;
Provisional.
Length = 1159
Score = 30.7 bits (70), Expect = 0.58
Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 19/87 (21%)
Query: 156 VAPYVRENPLHEISLVLYREHVGVL-----HLKVMPRLQ------DTVDRFGIKRQVPSV 204
V + R N + VG++ HL +M L+ + GI+ + V
Sbjct: 256 VRAFARANSIDRWVAPSPDARVGIVTCGKAHLDLMEALRRLGLDDADLRAAGIR--IYKV 313
Query: 205 GISFSYDETKLHSRTVLQSFSRGLDEI 231
G+S+ + T L+ F+ GL+EI
Sbjct: 314 GLSWPLE------PTRLREFADGLEEI 334
>gnl|CDD|151346 pfam10898, DUF2716, Protein of unknown function (DUF2716). This
bacterial family of proteins has no known function.
Length = 143
Score = 30.4 bits (69), Expect = 0.62
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 58 WKVSLIPLGGYVSFSEDEKDMRSFFCAAPWKKILTVLAGPL 98
W V + P G Y F + KD + PW+K +T+ L
Sbjct: 104 WPVPVFPNGDYYFFLQ--KDFKWGLLGHPWEKSITIFGEEL 142
>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4;
Provisional.
Length = 915
Score = 30.7 bits (69), Expect = 0.63
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 140 DCIISLDGITVSAFEEVAPYVRENPLHEISLVLYREHVGVLHLKVMPRLQDTVDRFGIKR 199
D + + D +TV +V P +R + LY V V+H+KV+ G+K
Sbjct: 358 DSVKTGDRVTVVGILKVTP-IRTSTTRRTLKSLYTYFVNVIHVKVINSTNANQPEKGLKY 416
>gnl|CDD|148084 pfam06262, DUF1025, Domain of unknown function (DUF1025). Family
of bacterial protein with undetermined function.
Length = 96
Score = 29.0 bits (66), Expect = 1.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 14 LIIIVVIHEFGHYM 27
L+ VVIHE GH+
Sbjct: 71 LVRHVVIHEIGHHF 84
>gnl|CDD|131798 TIGR02751, PEPCase_arch, phosphoenolpyruvate carboxylase, archaeal
type. This family is the archaeal-type
phosphoenolpyruvate carboxylase, although not every host
species is archaeal. These sequences bear little
resemblance to the bacterial/eukaryotic type. The
members from Sulfolobus solfataricus and
Methanothermobacter thermautotrophicus were verified
experimentally, while the activity is known to be
present in a number of other archaea.
Length = 506
Score = 28.9 bits (65), Expect = 2.1
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 5/53 (9%)
Query: 35 RVLSF-----SVGFGPELIGITSRSGVRWKVSLIPLGGYVSFSEDEKDMRSFF 82
R + F S+G PELIGI S S + + Y + D +
Sbjct: 374 RAIKFTGALYSIGLPPELIGIGSLSELDEDDLEVIKELYPNLRSDLSFAARYL 426
>gnl|CDD|181525 PRK08655, PRK08655, prephenate dehydrogenase; Provisional.
Length = 437
Score = 27.6 bits (62), Expect = 4.7
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 133 IAGVKKGDC-IISLD-GITVSAFEEVAPYVRENPL 165
I K D IIS+ +T +EVAP+V+E L
Sbjct: 53 IDAAKDADIVIISVPINVTEDVIKEVAPHVKEGSL 87
>gnl|CDD|132354 TIGR03311, Se_dep_Molyb_1, selenium-dependent molybdenum
hydroxylase 1. Members of this protein family show full
length homology to the molybdenum-containing aldehyde
oxido-reductase of Desulfovibrio gigas. Members,
however, are found only within species that have, and
near those genes that encode, a set of predicted
accessory proteins for selenium-dependent molybdenum
hydroxylases. The best known examples of such enzymes
are forms of xanthine dehydrogenase and purine
hydroxylase; this family appears to be another such
enzyme.
Length = 848
Score = 27.1 bits (60), Expect = 6.3
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 236 RGFLGVLSSAFGKDTRLNQISGPVGIA 262
RGF GV S F + LN ++ VG++
Sbjct: 506 RGF-GVTQSNFAMECNLNLLAEKVGLS 531
>gnl|CDD|169151 PRK07912, PRK07912, salicylate synthase MbtI; Reviewed.
Length = 449
Score = 27.1 bits (60), Expect = 7.3
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 11/54 (20%)
Query: 26 YMVARLCNIRVLSF--------SVGFGPELIGITSRSGVRWKVSLIPLGGYVSF 71
Y + R N V SF ++G+ PEL+ GV V PL G +F
Sbjct: 223 YRLGRRHNTPVRSFLLRLGGIRALGYSPELVTAVRADGV---VITEPLAGTRAF 273
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.330 0.145 0.443
Gapped
Lambda K H
0.267 0.0624 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,886,143
Number of extensions: 394471
Number of successful extensions: 1020
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1012
Number of HSP's successfully gapped: 38
Length of query: 349
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 255
Effective length of database: 3,963,321
Effective search space: 1010646855
Effective search space used: 1010646855
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 58 (26.3 bits)