RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780805|ref|YP_003065218.1| chromosome partitioning
protein B [Candidatus Liberibacter asiaticus str. psy62]
(300 letters)
>gnl|CDD|31664 COG1475, Spo0J, Predicted transcriptional regulators
[Transcription].
Length = 240
Score = 139 bits (351), Expect = 7e-34
Identities = 83/221 (37%), Positives = 132/221 (59%), Gaps = 8/221 (3%)
Query: 42 ISIHSIVPNPHNPRNYFESEGLEDLCQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAA 101
I I I PNP PR F+ E LE+L SIK G+IQP++VR Y+I+ G RR RAA
Sbjct: 7 IDIVLIAPNPLQPRKKFDEESLEELAASIKEFGLIQPIVVRP----RYEIVDGHRRLRAA 62
Query: 102 KMASLSEVPVIIRNVDNKSSLEIAIVENVQRKDLNPLEEALG-YEQLISEYGYTQNDIGS 160
K+ L EVPVI+R+++++ LE+++ EN+QR+DL P+EEALG Y +LI +G T+ I
Sbjct: 63 KLLGLEEVPVIVRDLEDEKLLELSLAENIQREDLVPIEEALGAYYELIDGFGLTRERIAK 122
Query: 161 IVGKSRSHVANILRILKLPSSVREMIRKEEISLGHARTLVSTSDP---LSLAQVIVSKKM 217
+GKSR+ ++N+L + LP V E + + +++ HAR L+S + + +V + +
Sbjct: 123 ALGKSRARISNLLPLAALPEEVVEALGRIALTIRHARALLSLLVEELMSEIVRELVKEGL 182
Query: 218 SVRDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKIS 258
SVR E+LV+ + + + + + K ++ L I
Sbjct: 183 SVRWIEKLVRALIKDALEELGMDKDEKLRLKQISGLAVLIK 223
>gnl|CDD|145381 pfam02195, ParBc, ParB-like nuclease domain.
Length = 90
Score = 92.8 bits (231), Expect = 1e-19
Identities = 40/89 (44%), Positives = 58/89 (65%), Gaps = 1/89 (1%)
Query: 42 ISIHSIVPNPHNPRNYFESEGLEDLCQSIKSHGIIQPLIVRAIDNGLYKIIAGERRFRAA 101
+ I + PN PR E E LE+L SIK HG++QP+IVR G Y+II G RR RAA
Sbjct: 3 VPIDKLRPNEDQPRLTSEEE-LEELIASIKEHGLLQPIIVRKTPGGRYEIIDGHRRLRAA 61
Query: 102 KMASLSEVPVIIRNVDNKSSLEIAIVENV 130
K+ L EVPVI+ +D++ ++ +++ EN+
Sbjct: 62 KLLGLKEVPVIVLELDDEEAIALSLEENI 90
>gnl|CDD|30814 COG0466, Lon, ATP-dependent Lon protease, bacterial type
[Posttranslational modification, protein turnover,
chaperones].
Length = 782
Score = 34.4 bits (79), Expect = 0.037
Identities = 49/198 (24%), Positives = 84/198 (42%), Gaps = 23/198 (11%)
Query: 102 KMASLSEVPVIIRNVDNKSSLEIAIVENVQRKDLNPLEEAL--GYEQLISEYGYTQNDIG 159
++ +L+++ I++ D + + ++ V+ L+ EE E L E + +I
Sbjct: 70 EVGTLAKILQILKLPDGTVKVLVEGLQRVRISKLSDEEEFFEAEIELLPDEPIDEEREIE 129
Query: 160 SIVGKSRSHVANILRILKLPSSVREMIRKEEISLGHARTLVSTSDPLSLAQVIVSKKMSV 219
++V S ++ K I EE+ ++L S DP LA I +
Sbjct: 130 ALVRSILSEFEEYAKLNKK-------IPPEEL-----QSLNSIDDPGKLADTIAAHLPLK 177
Query: 220 RDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKISSKVGLNISIKHRNNKGQFCIK 279
+ ++ + E + KE+ +K+ EKE L LEK+I KV + R
Sbjct: 178 LEEKQEILETLDVKERLEKLL-DLLEKEIDLLQLEKRIRKKVKEQMEKSQRE-------- 228
Query: 280 YETNEQLKIICSLLGEND 297
Y EQLK I LGE+D
Sbjct: 229 YYLREQLKAIQKELGEDD 246
>gnl|CDD|31849 COG1663, LpxK, Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope
biogenesis, outer membrane].
Length = 336
Score = 29.9 bits (67), Expect = 0.82
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 9/57 (15%)
Query: 88 LYKIIAGERRFRAAKMASLSEVPVIIRNVDN-------KSSLEIAIVENVQRKDLNP 137
LY IAG RR A K + + VPVI V N K+ + I + E +Q + +
Sbjct: 26 LYAFIAGLRRKLAKKGSYRAPVPVIC--VGNLTVGGTGKTPVVIWLAEALQARGVRV 80
>gnl|CDD|30057 cd01314, D-HYD, D-hydantoinases (D-HYD) also called
dihydropyrimidases (DHPase) and related proteins;
DHPases are a family of enzymes that catalyze the
reversible hydrolytic ring opening of the amide bond in
five- or six-membered cyclic diamides, like
dihydropyrimidine or hydantoin. The hydrolysis of
dihydropyrimidines is the second step of reductive
catabolism of pyrimidines in human. The hydrolysis of
5-substituted hydantoins in microorganisms leads to
enantiomerically pure N-carbamyl amino acids, which are
used for the production of antibiotics, peptide
hormones, pyrethroids, and pesticides. HYDs are
classified depending on their stereoselectivity. This
family also includes collapsin response regulators
(CRMPs), cytosolic proteins involved in neuronal
differentiation and axonal guidance which have strong
homology to DHPases, but lack most of the active site
residues..
Length = 447
Score = 29.0 bits (65), Expect = 1.5
Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 63 LEDLCQSIKSHGIIQPLIVRAIDNGLYK--IIAGERRFRAAKMASLSEVPVIIRNVDNKS 120
+ +L + + + G P + L + + E RA ++A L+ P+ I +V +K
Sbjct: 188 IAELQKKLLAQGKTGP-----EYHALSRPPEVEAEATARAIRLAELAGAPLYIVHVSSKE 242
Query: 121 SLEIA 125
+ +
Sbjct: 243 AADEI 247
>gnl|CDD|37394 KOG2183, KOG2183, KOG2183, Prolylcarboxypeptidase (angiotensinase
C) [Posttranslational modification, protein turnover,
chaperones, General function prediction only].
Length = 492
Score = 28.7 bits (64), Expect = 2.2
Identities = 9/41 (21%), Positives = 15/41 (36%)
Query: 38 SQDCISIHSIVPNPHNPRNYFESEGLEDLCQSIKSHGIIQP 78
+ C+ + P P F L I S+G++ P
Sbjct: 387 QEGCMQTFGVTPRPKWITTEFGGADLSAFSNIIFSNGLLDP 427
>gnl|CDD|34166 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 28.4 bits (63), Expect = 2.7
Identities = 13/68 (19%), Positives = 20/68 (29%)
Query: 220 RDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKISSKVGLNISIKHRNNKGQFCIK 279
E + + E F +E K L ++ K I + + F I
Sbjct: 7 PYMEMQNSKTSLEFEDAAYTFTFPKESIKLKEALLAELLDKSPPFIVAEITEDNDSFVIS 66
Query: 280 YETNEQLK 287
Y E K
Sbjct: 67 YPIPEAAK 74
>gnl|CDD|99989 cd03819, GT1_WavL_like, This family is most closely related to the
GT1 family of glycosyltransferases. WavL in Vibrio
cholerae has been shown to be involved in the
biosynthesis of the lipopolysaccharide core..
Length = 355
Score = 27.6 bits (62), Expect = 4.4
Identities = 12/27 (44%), Positives = 19/27 (70%)
Query: 171 NILRILKLPSSVREMIRKEEISLGHAR 197
N LRIL + +R +IR+E++ + HAR
Sbjct: 59 NPLRILLNVARLRRLIREEKVDIVHAR 85
>gnl|CDD|39358 KOG4156, KOG4156, KOG4156, Claspin, protein mediating
phosphorylation and activation of Chk1 protein kinase in
the DNA replication checkpoint response [Cell cycle
control, cell division, chromosome partitioning, Signal
transduction mechanisms].
Length = 1329
Score = 27.6 bits (60), Expect = 4.8
Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 200 VSTSDPLSLAQVIVSK---KMSVRDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKK 256
S + P QV+ +K M +R EE + Q K + E E+E+ +TD ++
Sbjct: 585 ASHTKPGEKLQVLKAKLQEAMKLRRFEERQKRQALFKLDNEDGKEEEEEEEEEMTDESEE 644
>gnl|CDD|37783 KOG2572, KOG2572, KOG2572, Ribosome biogenesis protein -
Nop58p/Nop5p [RNA processing and modification,
Translation, ribosomal structure and biogenesis].
Length = 498
Score = 26.9 bits (59), Expect = 6.8
Identities = 22/125 (17%), Positives = 48/125 (38%), Gaps = 9/125 (7%)
Query: 153 YTQNDIGSIVGKSRSHVANILRIL------KLPSSVREMIRKEEISLGHARTLVSTSDPL 206
+ I ++R+ + LR L + + + +KE+ T T + +
Sbjct: 373 LGEESTNEIGVENRAKLEKRLRSLEGRDLQESSILKKPLAKKEKYEGRSETTSADTYNTI 432
Query: 207 SLAQVIV---SKKMSVRDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKISSKVGL 263
+ SK+ + ++L + ++ + K+K+ E +K K EKK + K
Sbjct: 433 RDSARDKEEGSKEKKKKKAKKLGEGEEEESSKKKEKKEKKAKKAKKPAKEEKKPAKKKKK 492
Query: 264 NISIK 268
+ K
Sbjct: 493 SKKKK 497
>gnl|CDD|146157 pfam03370, CBM_21, Putative phosphatase regulatory subunit. This
family consists of several eukaryotic proteins that are
thought to be involved in the regulation of glycogen
metabolism. For instance, the mouse PTG protein has been
shown to interact with glycogen synthase, phosphorylase
kinase, phosphorylase a: these three enzymes have key
roles in the regulation of glycogen metabolism. PTG also
binds the catalytic subunit of protein phosphatase 1
(PP1C) and localizes it to glycogen. Subsets of similar
interactions have been observed with several other
members of this family, such as the yeast PIG1, PIG2,
GAC1 and GIP2 proteins. While the precise function of
these proteins is not known, they may serve a scaffold
function, bringing together the key enzymes in glycogen
metabolism. This family is a carbohydrate binding
domain.
Length = 108
Score = 26.8 bits (60), Expect = 7.6
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 275 QFCIKYETNEQ 285
+FCI+YE N Q
Sbjct: 85 EFCIRYEVNGQ 95
>gnl|CDD|176947 CHL00002, matK, maturase K.
Length = 504
Score = 26.8 bits (60), Expect = 7.8
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 23 QSIDSPEKKTETIPESQDCISIHSIVP 49
+ + S E+K I +SQ+ SIHSI P
Sbjct: 109 RLVSSLEEKE--IAKSQNLRSIHSIFP 133
>gnl|CDD|37215 KOG2004, KOG2004, KOG2004, Mitochondrial ATP-dependent protease
PIM1/LON [Posttranslational modification, protein
turnover, chaperones].
Length = 906
Score = 26.8 bits (59), Expect = 7.8
Identities = 44/207 (21%), Positives = 71/207 (34%), Gaps = 49/207 (23%)
Query: 92 IAGERRFRAAKMASLSEVPVIIRNVDNKSSLEIAIVENVQRKDLNPLEEALGYEQLISEY 151
+ G R +M E V+ V+N P ++ + L SE
Sbjct: 175 VTGLSRLNITEMKEEKEAEVLSVEVENVK--------------DEPFKKDEEIKALTSEI 220
Query: 152 GYTQNDIGSIVGKSRSHVANILRILKLPSSVREMIRKEEISLGHARTLVSTSDPLSLAQV 211
T DI ++ R VA + + L+ +P+ LA
Sbjct: 221 LKTLRDIIAVNSLFREQVATLSQ------------------------LIVEDNPIKLADF 256
Query: 212 IVS-KKMSVRDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKISSKVGLNISIKHR 270
+ + +E+++E D +K K + +E E L L++KI +V I HR
Sbjct: 257 GAAISGAEFHELQEVLEETDIEKRLEKALELLKKELE--LAKLQQKIGKEVEEKIKQDHR 314
Query: 271 NNKGQFCIKYETNEQLKIICSLLGEND 297
+Y EQLK I LG
Sbjct: 315 --------EYLLREQLKAIKKELGIEK 333
>gnl|CDD|147776 pfam05804, KAP, Kinesin-associated protein (KAP). This family
consists of several eukaryotic kinesin-associated (KAP)
proteins. Kinesins are intracellular multimeric
transport motor proteins that move cellular cargo on
microtubule tracks. It has been shown that the sea
urchin KRP85/95 holoenzyme associates with a KAP115
non-motor protein, forming a heterotrimeric complex in
vitro, called the Kinesin-II.
Length = 708
Score = 26.7 bits (59), Expect = 8.7
Identities = 15/67 (22%), Positives = 31/67 (46%), Gaps = 9/67 (13%)
Query: 187 RKEEISLGHARTLVSTSDPLSLAQVIVSK-----KMSVRDTEELVQEQDNKKEKRKKIFE 241
RKE + ++L + +D +LA+ +V K + + E+L+ N+K+ R
Sbjct: 37 RKECQKIIRLKSLNADTDIAALAREVVEKCKLIHPSKLNEVEQLLFYLQNRKDSRS---- 92
Query: 242 GSREKEK 248
+R +
Sbjct: 93 SARSRSS 99
>gnl|CDD|133016 cd02525, Succinoglycan_BP_ExoA, ExoA is involved in the
biosynthesis of succinoglycan. Succinoglycan
Biosynthesis Protein ExoA catalyzes the formation of a
beta-1,3 linkage of the second sugar (glucose) of the
succinoglycan with the galactose on the lipid carrie.
Succinoglycan is an acidic exopolysaccharide that is
important for invasion of the nodules. Succinoglycan is
a high-molecular-weight polymer composed of repeating
octasaccharide units. These units are synthesized on
membrane-bound isoprenoid lipid carriers, beginning with
galactose followed by seven glucose molecules, and
modified by the addition of acetate, succinate, and
pyruvate. ExoA is a membrane protein with a
transmembrance domain at c-terminus.
Length = 249
Score = 26.4 bits (59), Expect = 9.6
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 13/67 (19%)
Query: 203 SDPLSLAQVIVSKKMSVRDTEELVQEQDNKKEKRKKIFEGSREKEKYLTDLEKKISSKVG 262
S P L ++IV S T E+VQE K + + L D K+I S G
Sbjct: 26 SYPKDLIEIIVVDGGSTDGTREIVQEYAAKDPRIR------------LIDNPKRIQSA-G 72
Query: 263 LNISIKH 269
LNI I++
Sbjct: 73 LNIGIRN 79
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.313 0.132 0.356
Gapped
Lambda K H
0.267 0.0615 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,370,976
Number of extensions: 171957
Number of successful extensions: 441
Number of sequences better than 10.0: 1
Number of HSP's gapped: 433
Number of HSP's successfully gapped: 46
Length of query: 300
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 207
Effective length of database: 4,254,100
Effective search space: 880598700
Effective search space used: 880598700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.0 bits)