RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780828|ref|YP_003065241.1| ATP-dependent protease
peptidase subunit [Candidatus Liberibacter asiaticus str. psy62]
(190 letters)
>gnl|CDD|180095 PRK05456, PRK05456, ATP-dependent protease subunit HslV;
Provisional.
Length = 172
Score = 330 bits (850), Expect = 1e-91
Identities = 117/172 (68%), Positives = 144/172 (83%), Gaps = 1/172 (0%)
Query: 15 ATTILTVRKDGVVVIAGDGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLER 74
TTIL VR++G V IAGDGQV+LG TVMK NARKVRRL G ++AGFAGS+ADAFTL ER
Sbjct: 1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFER 60
Query: 75 LEKKLEQYPNQLLRSSVELAKDWRMDKYLRNLEAMILIADKTITLVITGMGDVLEPENGV 134
E KLE++ LLR++VELAKDWR D+YLR LEAM+++ADK +L+I+G GDV+EPE+G+
Sbjct: 61 FEAKLEEHQGNLLRAAVELAKDWRTDRYLRRLEAMLIVADKEHSLIISGNGDVIEPEDGI 120
Query: 135 MAIGSGGSYALSAARALMS-TQNSAEEIARKAMSIAADICVYTNHNIVLETL 185
+AIGSGG+YAL+AARAL+ T SAEEIA KA+ IAADIC+YTNHNI +E L
Sbjct: 121 IAIGSGGNYALAAARALLENTDLSAEEIAEKALKIAADICIYTNHNITIEEL 172
>gnl|CDD|163404 TIGR03692, ATP_dep_HslV, ATP-dependent protease HslVU, peptidase
subunit. The ATP-dependent protease HslVU, a complex of
hexameric HslU active as a protein-unfolding ATPase and
dodecameric HslV, the catalytic threonine protease.
Length = 171
Score = 308 bits (791), Expect = 7e-85
Identities = 118/171 (69%), Positives = 145/171 (84%), Gaps = 1/171 (0%)
Query: 16 TTILTVRKDGVVVIAGDGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLERL 75
TTIL VR++G VVIAGDGQV+LG TVMK NARKVRRL G ++AGFAGS+ADAFTL ER
Sbjct: 1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERF 60
Query: 76 EKKLEQYPNQLLRSSVELAKDWRMDKYLRNLEAMILIADKTITLVITGMGDVLEPENGVM 135
E KLE+Y L R++VELAKDWR D+YLR LEAM+++ADK +L+I+G GDV+EPE+G+
Sbjct: 61 EAKLEEYQGNLTRAAVELAKDWRTDRYLRRLEAMLIVADKETSLLISGTGDVIEPEDGIA 120
Query: 136 AIGSGGSYALSAARALM-STQNSAEEIARKAMSIAADICVYTNHNIVLETL 185
AIGSGG+YAL+AARAL+ +T SAEEIAR+A+ IAADIC+YTNHNI +E L
Sbjct: 121 AIGSGGNYALAAARALLRNTDLSAEEIAREALKIAADICIYTNHNITIEEL 171
>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type.
Members of this family are the beta subunit of the 20S
proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In
Streptomyces, maturation during proteasome assembly was
shown to remove a 53-amino acid propeptide. Most of the
length of the propeptide is not included in this model.
Length = 219
Score = 35.1 bits (81), Expect = 0.010
Identities = 42/174 (24%), Positives = 69/174 (39%), Gaps = 17/174 (9%)
Query: 14 HATTILTVRKDGVVVIAGDGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLE 73
H TTI+ + G V++AGD + + G + + KV G AG++ A L+
Sbjct: 1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYP-TDEYSAVGIAGTAGLAIELVR 59
Query: 74 RLEKKLEQYPNQLLRSSVELAKDWRMDKYLRNLEAMILIADKTITLVI-----TGMGDVL 128
+ +LE Y K R+ +R + + L+ G G +
Sbjct: 60 LFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIF 119
Query: 129 E--------PENGVMAIGSGGSYALSAARALMS---TQNSAEEIARKAMSIAAD 171
E G A+GSG +A A + L S ++ A +A +A+ AAD
Sbjct: 120 SYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAAD 173
>gnl|CDD|163367 TIGR03634, arc_protsome_B, proteasome endopeptidase complex,
archaeal, beta subunit. This protein family describes
the archaeal proteasome beta subunit, homologous to
both the alpha subunit and to the alpha and beta
subunits of eukaryotic proteasome subunits. This family
is universal in the first 29 complete archaeal genomes
but occasionally is duplicated.
Length = 185
Score = 34.1 bits (79), Expect = 0.020
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 15 ATTILTVRKDGVVVIAGDGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLER 74
TT+ KDGVV +A D + S+G V NA+KV ++ I AGS DA +L+
Sbjct: 2 TTTVGIKCKDGVV-LAADKRASMGNFVASKNAKKVFQIDD-YIAMTIAGSVGDAQSLVRI 59
Query: 75 LEKKLEQY 82
L+ + + Y
Sbjct: 60 LKAEAKLY 67
>gnl|CDD|184293 PRK13742, PRK13742, replication protein; Provisional.
Length = 245
Score = 30.3 bits (68), Expect = 0.29
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 74 RLEKKLEQYPNQLLRSSVELAKDWRMDKY 102
RL + L QY V L DW +++Y
Sbjct: 164 RLYESLCQYRKPDGSGIVSLKIDWIIERY 192
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 30.0 bits (67), Expect = 0.38
Identities = 38/164 (23%), Positives = 67/164 (40%), Gaps = 13/164 (7%)
Query: 14 HATTILTVRKDGVVVIAGDGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLE 73
H TT L + G ++IA D + + G + + +KV + ++ AG +AD + E
Sbjct: 38 HGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINP-TLLGTMAGGAADC-SFWE 95
Query: 74 R---LEKKLEQYPNQLLRSSVELAKD-----WRMDKYLRNLEAMILIADKTITLVITGMG 125
R ++ +L + N L S +K W ++ MI DK +
Sbjct: 96 RELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDN 155
Query: 126 DVLEPENGVMAIGSGGSYA---LSAARALMSTQNSAEEIARKAM 166
D + + GSG +YA L A A+++ R+A+
Sbjct: 156 DGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAI 199
>gnl|CDD|131872 TIGR02825, B4_12hDH, leukotriene B4
12-hydroxydehydrogenase/15-oxo-prostaglandin
13-reductase. Leukotriene B4 12-hydroxydehydrogenase is
an NADP-dependent enzyme of arachidonic acid metabolism,
responsible for converting leukotriene B4 to the much
less active metabolite 12-oxo-leukotriene B4. The BRENDA
database lists leukotriene B4 12-hydroxydehydrogenase as
one of the synonyms of 2-alkenal reductase (EC
1.3.1.74), while 1.3.1.48 is 15-oxoprostaglandin
13-reductase.
Length = 325
Score = 26.9 bits (59), Expect = 3.1
Identities = 16/55 (29%), Positives = 28/55 (50%)
Query: 32 DGQVSLGQTVMKANARKVRRLGKGNIIAGFAGSSADAFTLLERLEKKLEQYPNQL 86
+G +GQ V + K L KG I+ G ++ + + + LEK L ++P+ L
Sbjct: 56 EGDTMMGQQVARVVESKNVALPKGTIVLASPGWTSHSISDGKDLEKLLTEWPDTL 110
>gnl|CDD|183720 PRK12748, PRK12748, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 27.0 bits (60), Expect = 3.3
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 4 MGDKHYAVKMHATTILTV--------RKDGVVVIAGDGQVSLG 38
DKHYAV + AT +L+ + G ++ GQ SLG
Sbjct: 118 QLDKHYAVNVRATMLLSSAFAKQYDGKAGGRIINLTSGQ-SLG 159
>gnl|CDD|178787 PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed.
Length = 309
Score = 27.0 bits (61), Expect = 3.4
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 17 TILTVRKDGVVVIAGDGQVSLGQ 39
TIL + KDG+VV G+G + L Q
Sbjct: 260 TILAIDKDGIVVATGEGALRLTQ 282
>gnl|CDD|183797 PRK12859, PRK12859, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 256
Score = 26.7 bits (59), Expect = 4.2
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 4 MGDKHYAVKMHATTILTV 21
DKHY V + ATT+L+
Sbjct: 119 ELDKHYMVNVRATTLLSS 136
>gnl|CDD|178112 PLN02495, PLN02495, oxidoreductase, acting on the CH-CH group of
donors.
Length = 385
Score = 26.0 bits (57), Expect = 5.9
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 58 IAGFAGSSADAFT----LLERLEKKLEQYPNQLLRSSVELAKDWRMDKYLRNLEAMI 110
I F G+S FT L++R ++ + Q + +R + KDW D +++ E+M+
Sbjct: 329 IEDFRGASLPYFTTHTDLVQRQKEAIRQ--RKAIRKGLASDKDWTGDGFVKETESMV 383
>gnl|CDD|162341 TIGR01407, dinG_rel, DnaQ family exonuclease/DinG family helicase,
putative. This model represents a family of proteins in
Gram-positive bacteria. The N-terminal region of about
200 amino acids resembles the epsilon subunit of E. coli
DNA polymerase III and the homologous region of the
Gram-positive type DNA polymerase III alpha subunit. The
epsilon subunit contains an exonuclease domain. The
remainder of this protein family resembles a predicted
ATP-dependent helicase, the DNA damage-inducible protein
DinG of E. coli.
Length = 850
Score = 25.9 bits (57), Expect = 6.9
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 67 DAFT---LLERLEKKLEQYPNQLLRSSVELAKDWRMDKYL 103
DA LL L +K+E+ P L +EL+ + Y
Sbjct: 150 DAQATAELLLLLFEKMEKLPLDTLEQLLELSDQLLYESYD 189
>gnl|CDD|183932 PRK13266, PRK13266, Thf1-like protein; Reviewed.
Length = 225
Score = 25.6 bits (57), Expect = 7.4
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 11/43 (25%)
Query: 73 ERLEKKLEQYPNQLLRSSVELAKDWRMDKYLRNLEAMILIADK 115
E++EK L+ Y RS++E +M++ L L A++
Sbjct: 182 EKVEKDLDLY-----RSNLE-----KMEQ-ALELIEETLEAER 213
>gnl|CDD|161730 TIGR00143, hypF, [NiFe] hydrogenase maturation protein HypF. A
previously described regulatory effect of HypF
mutatation is attributable to loss of activity of a
regulatory hydrogenase. A zinc finger-like region
CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported
the regulatory hypothesis. However, more recent work
(PUBMED:11375153) shows the direct effect is on the
activity of expressed hydrogenases with nickel/iron
centers, rather than on expression.
Length = 711
Score = 25.9 bits (57), Expect = 7.6
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 30 AGDGQVSLGQTVMKA 44
GDG +SLGQ V A
Sbjct: 697 PGDGGISLGQAVAAA 711
>gnl|CDD|183432 PRK12316, PRK12316, peptide synthase; Provisional.
Length = 5163
Score = 25.7 bits (56), Expect = 7.9
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 22 RKDGVVVIAGDGQVSLGQTVMKAN--ARKVRRLGKG 55
+ + V+ GD +S + +AN A ++R G G
Sbjct: 2016 APEAIAVVFGDQHLSYAELDSRANRLAHRLRARGVG 2051
>gnl|CDD|184412 PRK13947, PRK13947, shikimate kinase; Provisional.
Length = 171
Score = 25.4 bits (56), Expect = 8.5
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 100 DKYLRNLEAM--ILIADKTITLVITGMGDVLEPENGVMAIGSGGSYALSA 147
+ R+ E + +A ++ TG G VL PEN V +G L A
Sbjct: 53 EVRFRSEEKLLVKKLARLKNLVIATGGGVVLNPENVVQLRKNGVVICLKA 102
>gnl|CDD|177955 PLN02321, PLN02321, 2-isopropylmalate synthase.
Length = 632
Score = 25.7 bits (56), Expect = 8.5
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 4/42 (9%)
Query: 32 DGQVSLGQTVMKAN----ARKVRRLGKGNIIAGFAGSSADAF 69
DG+ S G T+ AR++ +LG I AGF +S D
Sbjct: 96 DGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPIASPDDL 137
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
0.317 0.132 0.358
Gapped
Lambda K H
0.267 0.0816 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,020,568
Number of extensions: 192232
Number of successful extensions: 593
Number of sequences better than 10.0: 1
Number of HSP's gapped: 590
Number of HSP's successfully gapped: 48
Length of query: 190
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 102
Effective length of database: 4,092,969
Effective search space: 417482838
Effective search space used: 417482838
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 (21.7 bits)
S2: 54 (24.4 bits)