RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780292|ref|YP_003064705.1| 50S ribosomal protein L13
[Candidatus Liberibacter asiaticus str. psy62]
(155 letters)
>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed.
Length = 144
Score = 234 bits (601), Expect = 5e-63
Identities = 73/143 (51%), Positives = 101/143 (70%), Gaps = 1/143 (0%)
Query: 4 TFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKV 63
TF K +EVE+KW ++DA+G ++GRLAS++A LRGK+KPT+TP D GD V++INA KV
Sbjct: 3 TFSAKPAEVERKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKV 62
Query: 64 AFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKN 123
+GKK K YYRH+GYPGG+K+ T E+LA P +++KA+ MLP+ PL R K
Sbjct: 63 KLTGKKLTDKIYYRHSGYPGGLKEITFGELLA-KKPERVIEKAVKGMLPKNPLGRAMFKK 121
Query: 124 LHIYAEDHHPHEAQKPVFMDIAK 146
L +YA HPH AQ+P ++I +
Sbjct: 122 LKVYAGAEHPHAAQQPEVLEIKQ 144
>gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type. This
model distinguishes ribosomal protein L13 of bacteria
and organelles from its eukarytotic and archaeal
counterparts.
Length = 140
Score = 189 bits (481), Expect = 4e-49
Identities = 74/141 (52%), Positives = 100/141 (70%), Gaps = 1/141 (0%)
Query: 4 TFFQKSSEVEKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKV 63
T + S + ++KW +VDA G +GRLAS++A LRGK+KPTYTP D GD+V++INA KV
Sbjct: 1 TLAKASDDKKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKV 60
Query: 64 AFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKN 123
+GKK +QK YYRH+GYPGG+K T +E++A P +L+ A+ MLP+ L RK K
Sbjct: 61 RLTGKKLEQKVYYRHSGYPGGLKSRTFEEMIA-RKPERVLEHAVKGMLPKNRLGRKLFKK 119
Query: 124 LHIYAEDHHPHEAQKPVFMDI 144
L +YA HPHEAQKP+ +DI
Sbjct: 120 LKVYAGSEHPHEAQKPIVLDI 140
>gnl|CDD|177795 PLN00205, PLN00205, ribisomal protein L13 family protein;
Provisional.
Length = 191
Score = 121 bits (305), Expect = 9e-29
Identities = 53/119 (44%), Positives = 80/119 (67%), Gaps = 1/119 (0%)
Query: 15 KWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKT 74
+W + DAKG ++GRLASQI+ L+GK+KPTY P+ DDGD +++NA ++ +G+K K
Sbjct: 16 RWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISVTGRKLTDKF 75
Query: 75 YYRHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHP 133
Y HTGY G +K+ + K+ +A PT +++KA+ RMLPR L + + L I+A HP
Sbjct: 76 YRWHTGYIGHLKERSLKDQMA-KDPTEVIRKAVLRMLPRNRLRDDRDRKLRIFAGSEHP 133
>gnl|CDD|180552 PRK06394, rpl13p, 50S ribosomal protein L13P; Reviewed.
Length = 146
Score = 59.5 bits (145), Expect = 3e-10
Identities = 38/124 (30%), Positives = 56/124 (45%), Gaps = 29/124 (23%)
Query: 13 EKKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSG----- 67
+ +++DA+G I+GRLAS +A RL +G+ VVI+NA K +G
Sbjct: 1 FEAMVVIDAEGQILGRLASYVAKRLL------------EGEEVVIVNAEKAVITGNRERV 48
Query: 68 -KKYDQKTYYRHTGYP--GGIKKTTAKEILAGASPTNILKKAIARMLP-RGPLARKQMKN 123
+KY Q+ P G K P I K+ I MLP + P R+ +K
Sbjct: 49 IEKYKQRRERGSHYNPYRNGPKYPR--------RPDRIFKRTIRGMLPYKKPRGREALKR 100
Query: 124 LHIY 127
L +Y
Sbjct: 101 LKVY 104
>gnl|CDD|162192 TIGR01077, L13_A_E, ribosomal protein L13, archaeal/eukaryotic.
This model represents ribosomal protein of L13 from the
Archaea and from the eukaryotic cytosol. Bacterial and
organellar forms are represented by TIGR01066.
Length = 142
Score = 49.7 bits (119), Expect = 3e-07
Identities = 32/129 (24%), Positives = 55/129 (42%), Gaps = 16/129 (12%)
Query: 17 ILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQKTYY 76
++D G I+GRLAS +A +L +G+ VV++NA K+ SG Y K Y
Sbjct: 1 TVIDGSGHILGRLASVVAKQLL------------NGEKVVVVNAEKIVISGNFYRNKLKY 48
Query: 77 RHTGYPGGIKKTTAKEILAGASPTNILKKAIARMLP-RGPLARKQMKNLHIYAEDHHPHE 135
+ + +P+ I ++ + MLP + R ++ L +Y P E
Sbjct: 49 KEF-LRKRTLTNPRRGPFFPRAPSRIFRRTVRGMLPHKTARGRAALRRLKVY--VGIPPE 105
Query: 136 AQKPVFMDI 144
K + +
Sbjct: 106 LDKKKRVVV 114
>gnl|CDD|185423 PTZ00068, PTZ00068, 60S ribosomal protein L13a; Provisional.
Length = 202
Score = 34.6 bits (80), Expect = 0.010
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 25/117 (21%)
Query: 14 KKWILVDAKGLIVGRLASQIALRLRGKNKPTYTPSADDGDHVVIINASKVAFSGKKYDQK 73
KK I++D KG ++GRLAS +A L G +V++ + SG + K
Sbjct: 3 KKVIVIDCKGHLLGRLASVVAKELL------------LGQKIVVVRCEDLNISGSLFRNK 50
Query: 74 TYYRHTGYPGGIKKTTAKEILAGA----SPTNILKKAIARMLP----RGPLARKQMK 122
Y ++K G +P++I + + MLP RG A K++K
Sbjct: 51 VKYEEF-----LRKRMNTNPRRGPFHHRAPSDIFWRTVRGMLPHKTKRGAAALKRLK 102
>gnl|CDD|178796 PRK00016, PRK00016, metal-binding heat shock protein; Provisional.
Length = 159
Score = 29.8 bits (68), Expect = 0.27
Identities = 13/64 (20%), Positives = 20/64 (31%), Gaps = 20/64 (31%)
Query: 35 LRLRGKNKPT---------YTPSADD--------GDHVVIINASKVAFSGKKYDQKTYYR 77
L RGK+KPT DD GD ++I ++ + R
Sbjct: 55 LEYRGKDKPTDVLSFPMDELPLLEDDGEEGPAYLGD--IVICPEVAEEQAEEQ-GHSLER 111
Query: 78 HTGY 81
+
Sbjct: 112 ELAH 115
>gnl|CDD|162131 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein.
Length = 1394
Score = 28.9 bits (65), Expect = 0.58
Identities = 24/114 (21%), Positives = 43/114 (37%), Gaps = 13/114 (11%)
Query: 53 DHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPT-NILKKAIARML 111
D V+++ + G K Y+ G+ ++TTA + + SP +K + +
Sbjct: 279 DKVIVLYEGYQIYFGPADKAKQYFEKMGFKCPDRQTTADFLTSLTSPAERQIKPGYEKKV 338
Query: 112 PRGPLARKQM-KNLHIYAE---------DHHPHEAQKPVFMDIAKMNPKNSRRT 155
PR P + +N YA+ D K + + K S+RT
Sbjct: 339 PRTPQEFETYWRNSPEYAQLMKEIDEYLDRCSESDTKEAYRE--SHVAKQSKRT 390
>gnl|CDD|177788 PLN00194, PLN00194, aldose 1-epimerase; Provisional.
Length = 337
Score = 27.0 bits (60), Expect = 2.4
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 19/89 (21%)
Query: 23 GLIVGRLASQIA---LRLRGKNKPTYTPSADDGD---HVVIINASKVAFSGKKYDQK--- 73
G IVGR+A++I L G TY ++G H SKV + KY +
Sbjct: 63 GAIVGRVANRIKGAKFTLNGV---TYKLPPNNGPNSLHGGPKGFSKVVWEVAKYKKGEKP 119
Query: 74 ----TYYRH---TGYPGGIKKTTAKEILA 95
Y+ G+PG + T +L+
Sbjct: 120 SITFKYHSFDGEEGFPGDLSVTVTYTLLS 148
>gnl|CDD|178689 PLN03144, PLN03144, Carbon catabolite repressor protein 4 homolog;
Provisional.
Length = 606
Score = 26.6 bits (59), Expect = 3.0
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 5/24 (20%)
Query: 44 TYTPSADDGDHV-----VIINASK 62
TYTP+ADD HV V+++A
Sbjct: 182 TYTPTADDVGHVLKFECVVVDAET 205
>gnl|CDD|185632 PTZ00453, PTZ00453, cyclin-dependent kinase; Provisional.
Length = 96
Score = 26.1 bits (57), Expect = 3.8
Identities = 17/70 (24%), Positives = 25/70 (35%), Gaps = 22/70 (31%)
Query: 47 PSADDGDHVVIINASKVAFSGKKYDQKTYYRHTGYPGGIKKTTAKEILAGASPTNILKKA 106
+ ++ SK+ +S K YD + YRH IL K
Sbjct: 12 NGQREALIMISKLQSKILYSDKYYDDEYEYRHV----------------------ILPKD 49
Query: 107 IARMLPRGPL 116
AR++PR L
Sbjct: 50 FARLVPRSRL 59
>gnl|CDD|182731 PRK10788, PRK10788, periplasmic folding chaperone; Provisional.
Length = 623
Score = 26.1 bits (58), Expect = 4.4
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 34 ALRLRGKNKPTYTPSADDGDHVVIINASKV 63
AL L K+KP+Y + D +VV+I +V
Sbjct: 549 ALPLPAKDKPSYGMAQDMQGNVVLIALDEV 578
>gnl|CDD|114555 pfam05834, Lycopene_cycl, Lycopene cyclase protein. This family
consists of lycopene beta and epsilon cyclase proteins.
Carotenoids with cyclic end groups are essential
components of the photosynthetic membranes in all
plants, algae, and cyanobacteria. These lipid-soluble
compounds protect against photo-oxidation, harvest light
for photosynthesis, and dissipate excess light energy
absorbed by the antenna pigments. The cyclisation of
lycopene (psi, psi-carotene) is a key branch point in
the pathway of carotenoid biosynthesis. Two types of
cyclic end groups are found in higher plant carotenoids:
the beta and epsilon rings. Carotenoids with two beta
rings are ubiquitous, and those with one beta and one
epsilon ring are common; however, carotenoids with two
epsilon rings are rare.
Length = 374
Score = 25.3 bits (56), Expect = 6.8
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 130 DHHPHEAQKPVFMD 143
D+ PH+ PV MD
Sbjct: 161 DNPPHDPDVPVIMD 174
>gnl|CDD|130850 TIGR01790, carotene-cycl, lycopene cyclase family protein. This
family includes lycopene beta and epsilion cyclases
(which form beta and delta carotene, respectively) from
bacteria and plants as well as the plant
capsanthin/capsorubin and neoxanthin cyclases which
appear to have evolved from the plant lycopene cyclases.
The plant lycopene epsilon cyclases also transform
neurosporene to alpha zeacarotene.
Length = 388
Score = 25.5 bits (56), Expect = 7.0
Identities = 5/14 (35%), Positives = 5/14 (35%)
Query: 130 DHHPHEAQKPVFMD 143
PH V MD
Sbjct: 165 SRPPHGPSSMVIMD 178
>gnl|CDD|180885 PRK07208, PRK07208, hypothetical protein; Provisional.
Length = 479
Score = 25.2 bits (56), Expect = 7.1
Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 5 FFQKSSEVEKKW--ILVDAKGLIVGRLASQIALRLRGK 40
FF KS EV W IL D L+ RL S+I RGK
Sbjct: 60 FFSKSPEVMDLWNEILPDDDFLLRPRL-SRI--YYRGK 94
>gnl|CDD|166612 PLN02971, PLN02971, tryptophan N-hydroxylase.
Length = 543
Score = 25.0 bits (54), Expect = 8.0
Identities = 12/40 (30%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 87 KTTAKEILAGA--SPTNILKKAIARMLPRGPLARKQMKNL 124
K T KE++ A +P+N ++ A+A M+ + + K M+ +
Sbjct: 329 KPTIKELVMAAPDNPSNAVEWAMAEMINKPEILHKAMEEI 368
>gnl|CDD|178437 PLN02844, PLN02844, oxidoreductase/ferric-chelate reductase.
Length = 722
Score = 24.8 bits (54), Expect = 8.9
Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 11/57 (19%)
Query: 97 ASPTNILKKAIARMLPRGPLARKQMKNLHIYAEDHHPHEAQKPVFMDIAKMNPKNSR 153
S +K M RGP+ E+H H +P F DI PK +R
Sbjct: 627 VSQKQGIKPEEGSMEKRGPVL-----------EEHEIHFGGRPNFQDIFSKFPKETR 672
>gnl|CDD|163145 TIGR03124, ctirate_citX, holo-ACP synthase CitX. Members of this
protein family are the CitX protein, or CitX domain of
the CitXG bifunctional protein, of the citrate lyase
system. CitX transfers the prosthetic group
2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the
citrate lyase gamma chain, an acyl carrier protein. This
enzyme may be designated holo-ACP synthase, holo-citrate
lyase synthase, or apo-citrate lyase
phosphoribosyl-dephospho-CoA transferase. In a few
genera, including Haemophilus, this protein occurs as a
fusion protein with CitG (2.7.8.25), an enzyme involved
in prosthetic group biosynthesis. This CitX family is
easily separated from the holo-ACP synthases of other
enzyme systems.
Length = 165
Score = 24.9 bits (55), Expect = 9.3
Identities = 16/70 (22%), Positives = 21/70 (30%), Gaps = 17/70 (24%)
Query: 81 YPGGIKKTTA---------KEILAGASPTNI-LKKAIARMLPRGP-------LARKQMKN 123
PG IK K I A + + A GP ++K
Sbjct: 35 IPGPIKNNELLRRVFDIGIKAIEALLAKNGWTILVQQALNEATGPEAFLVVDAPALELKR 94
Query: 124 LHIYAEDHHP 133
L I E+ HP
Sbjct: 95 LMIKLEESHP 104
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 0.133 0.386
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,581,732
Number of extensions: 155694
Number of successful extensions: 288
Number of sequences better than 10.0: 1
Number of HSP's gapped: 279
Number of HSP's successfully gapped: 24
Length of query: 155
Length of database: 5,994,473
Length adjustment: 85
Effective length of query: 70
Effective length of database: 4,157,793
Effective search space: 291045510
Effective search space used: 291045510
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: 53 (24.1 bits)