RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780779|ref|YP_003065192.1| 30S ribosomal protein S2
[Candidatus Liberibacter asiaticus str. psy62]
(278 letters)
>gnl|CDD|180001 PRK05299, rpsB, 30S ribosomal protein S2; Provisional.
Length = 258
Score = 389 bits (1002), Expect = e-109
Identities = 121/254 (47%), Positives = 175/254 (68%), Gaps = 1/254 (0%)
Query: 3 LPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDT 62
+ +++QLLE+GV FGH+ WNPKM+ YIF ERN HIIDL +TVPML +A + D
Sbjct: 1 MAVVSMKQLLEAGVHFGHQTRRWNPKMKPYIFGERNGIHIIDLQKTVPMLDEAYNFVRDV 60
Query: 63 VARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEEL 122
A GG+ILFV TK QA + + E A+R VN +WLGGM+TN+KT+ +SI++L++LE++
Sbjct: 61 AANGGKILFVGTKKQAQEAIAEEAERCGMPYVNHRWLGGMLTNFKTIRKSIKRLKELEKM 120
Query: 123 L-NKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLR 181
+ + TKKE L + R+ +KL+++L GI+DMGGLPD +FVVD N+E +A++EAR+L
Sbjct: 121 EEDGTFEKLTKKEALMLTRELEKLEKSLGGIKDMGGLPDALFVVDPNKEHIAVKEARKLG 180
Query: 182 IPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTKSAG 241
IP+VA+VDTN +PD VDY IPGNDD+ RSI L+ +A A ++G + + + +
Sbjct: 181 IPVVAIVDTNCDPDGVDYPIPGNDDAIRSIKLYTSKIADAILEGRQGRLAEAAEEEEEEA 240
Query: 242 ETVVHSKEGMQLEE 255
E +E + EE
Sbjct: 241 EEEEEEEEEEEAEE 254
>gnl|CDD|183428 PRK12311, rpsB, 30S ribosomal protein S2/unknown domain fusion
protein; Provisional.
Length = 326
Score = 384 bits (988), Expect = e-107
Identities = 151/230 (65%), Positives = 190/230 (82%), Gaps = 1/230 (0%)
Query: 8 IRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGG 67
+RQLLE+GV FGH++ WNPKM YIF RNN HIIDL+QTVP+L +ALQ +SDTVA+GG
Sbjct: 1 MRQLLEAGVHFGHQSHRWNPKMAPYIFGTRNNIHIIDLAQTVPLLHRALQAVSDTVAKGG 60
Query: 68 RILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNK-E 126
R+LFV TK QA D V +AAKRSAQY VNS+WLGG +TNWKT+S SIQ+LR L+E+L+ E
Sbjct: 61 RVLFVGTKRQAQDAVADAAKRSAQYFVNSRWLGGTLTNWKTISGSIQRLRKLDEVLSSGE 120
Query: 127 NQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVA 186
G+TKKERL ++R+RDKL RAL GI+DMGGLPDL+FV+DTN+E +AIQEA+RL IP+ A
Sbjct: 121 ANGYTKKERLTLQRERDKLDRALGGIKDMGGLPDLLFVIDTNKEDIAIQEAQRLGIPVAA 180
Query: 187 VVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGAD 236
+VDTN +PD + Y +PGNDD+ R+IAL+CDL+A AAIDGI+R +G D
Sbjct: 181 IVDTNCDPDGITYPVPGNDDAGRAIALYCDLIARAAIDGISRAQGDLGID 230
>gnl|CDD|130084 TIGR01011, rpsB_bact, ribosomal protein S2, bacterial type.
TIGR01012 describes the archaeal and cytosolic forms.
Length = 225
Score = 318 bits (818), Expect = 8e-88
Identities = 113/220 (51%), Positives = 162/220 (73%), Gaps = 1/220 (0%)
Query: 7 TIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARG 66
+++ LLE+GV FGH+ WNPKM+ +IF ERN HIIDL +T+ +L++A + D A G
Sbjct: 3 SMKDLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLQLLKEAYNFVKDVAANG 62
Query: 67 GRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNKE 126
G+ILFV TK QA + + E A+R + VN +WLGGM+TN+KT+ +SI+KL+ LE++
Sbjct: 63 GKILFVGTKKQAKEIIKEEAERCGMFYVNQRWLGGMLTNFKTIRKSIKKLKKLEKMEEDG 122
Query: 127 NQ-GFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIV 185
TKKE L + R+++KL+++L GI+DM LPDL+FV+D +EK+A+ EAR+L IP+V
Sbjct: 123 TFDDLTKKEALMLSREKEKLEKSLGGIKDMKKLPDLLFVIDPVKEKIAVAEARKLGIPVV 182
Query: 186 AVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG 225
A+VDTN +PDLVDY IPGNDD+ RSI L +L+A A ++G
Sbjct: 183 AIVDTNCDPDLVDYPIPGNDDAIRSIRLLTNLIADAVLEG 222
>gnl|CDD|185527 PTZ00254, PTZ00254, 40S ribosomal protein SA; Provisional.
Length = 249
Score = 62.8 bits (153), Expect = 9e-11
Identities = 48/208 (23%), Positives = 88/208 (42%), Gaps = 51/208 (24%)
Query: 8 IRQLLESGVQFGHRNFLWNPKMERYIFCER--NNTHIIDLSQTVPMLQKALQVISDTVAR 65
I+++L G +N M++Y++ +R HII+L++T L+ A +VI+ +
Sbjct: 15 IKKMLACKCHIGTKNL--ENAMKKYVY-KRTKEGVHIINLAKTWEKLKLAARVIA-AIEN 70
Query: 66 GGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNK 125
++ V+++ V++ A+ + + ++ G TN Q +K
Sbjct: 71 PADVVVVSSRPYGQRAVLKFAQYTGASAIAGRFTPGTFTN-----QIQKK---------- 115
Query: 126 ENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIV 185
F + P L+ V D + AI+EA + IP++
Sbjct: 116 ----FME--------------------------PRLLIVTDPRTDHQAIREASYVNIPVI 145
Query: 186 AVVDTNSNPDLVDYVIPGNDDSSRSIAL 213
A+ DT+S + VD IP N+ SIAL
Sbjct: 146 ALCDTDSPLEYVDIAIPCNNRGKESIAL 173
>gnl|CDD|179713 PRK04020, rps2P, 30S ribosomal protein S2; Provisional.
Length = 204
Score = 58.7 bits (143), Expect = 2e-09
Identities = 21/55 (38%), Positives = 35/55 (63%)
Query: 159 PDLMFVVDTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIAL 213
PD++ V D + A++EA + IP+VA+ DT++ VD VIP N+ +++AL
Sbjct: 115 PDVVVVTDPRGDAQAVKEAIEVGIPVVALCDTDNLTSNVDLVIPTNNKGRKALAL 169
>gnl|CDD|130085 TIGR01012, Sa_S2_E_A, ribosomal protein Sa(cytosolic)/S2(archaeal).
TIGR01011 describes the related protein of organelles
and bacteria.
Length = 196
Score = 57.1 bits (138), Expect = 5e-09
Identities = 46/207 (22%), Positives = 83/207 (40%), Gaps = 50/207 (24%)
Query: 8 IRQLLESGVQFGHRNFLWNPKMERYIFCERNN-THIIDLSQTVPMLQKALQVISDTVARG 66
+ + L +GV G +N ME++I+ R++ +++DL +T L+ A + +
Sbjct: 6 VDKYLAAGVHIGTQNK--TKDMEKFIYKVRSDGLYVLDLRKTDERLRVAAKFLV--RIEP 61
Query: 67 GRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNKE 126
IL V+ + V++ AK + + ++ G TN
Sbjct: 62 EDILVVSARIYGQKPVLKFAKVTGARAIAGRFTPGTFTN--------------------- 100
Query: 127 NQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVA 186
R+ P+++ V D + A++EA + IPIVA
Sbjct: 101 --------------------PMQKAFRE----PEVVVVTDPRADHQALKEASEVGIPIVA 136
Query: 187 VVDTNSNPDLVDYVIPGNDDSSRSIAL 213
+ DT++ VD VIP N+ S+AL
Sbjct: 137 LCDTDNPLRYVDLVIPTNNKGRHSLAL 163
>gnl|CDD|178013 PLN02389, PLN02389, biotin synthase.
Length = 379
Score = 32.1 bits (73), Expect = 0.17
Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 73 ATKSQASDCVMEAAKR-----SAQYCVNSKW--LGGMMTNWKTVSQSIQKLRDL 119
A K + D V+EAAKR S ++C+ + W G TN+ + + ++++R +
Sbjct: 112 AQKLMSKDDVLEAAKRAKEAGSTRFCMGAAWRDTVGRKTNFNQILEYVKEIRGM 165
>gnl|CDD|129375 TIGR00274, TIGR00274, N-acetylmuramic acid 6-phosphate etherase.
This protein, MurQ, is involved in recycling components
of the bacterial murein sacculus turned over during cell
growth. The cell wall metabolite anhydro-N-acetylmuramic
acid (anhMurNAc) is converted by a kinase, AnmK, to
MurNAc-phosphate, then converted to
N-acetylglucosamine-phosphate by this etherase, called
MurQ. This family of proteins is similar to the
C-terminal half of a number of vertebrate glucokinase
regulator proteins and contains a Prosite pattern which
is shared by this group of proteins in a region of local
similarity.
Length = 291
Score = 31.7 bits (72), Expect = 0.24
Identities = 11/71 (15%), Positives = 35/71 (49%)
Query: 33 IFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSAQY 92
+ E + + + +P + A++ I +GGR++++ + V++A++ +
Sbjct: 24 LINEEDKLVPLAIESVLPDIAAAVEQIVQAFQQGGRLIYIGAGTSGRLGVLDASECPPTF 83
Query: 93 CVNSKWLGGMM 103
V+ + + G++
Sbjct: 84 GVSPELVKGII 94
>gnl|CDD|149105 pfam07851, TMPIT, TMPIT-like protein. A number of members of this
family are annotated as being transmembrane proteins
induced by tumour necrosis factor alpha, but no
literature was found to support this.
Length = 330
Score = 29.7 bits (67), Expect = 0.77
Identities = 11/54 (20%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 107 KTVSQSIQKLRDLEELLNKENQGFTKKERLNIERKRDKLKRALDGIRDM-GGLP 159
+++ ++L+ L L K + T ++ +E+ +++K + DM LP
Sbjct: 39 SAIARQRKRLKQLIVSLKKLKKSLTPEDSELVEQLEEQIKERKNQFFDMESFLP 92
>gnl|CDD|181250 PRK08140, PRK08140, enoyl-CoA hydratase; Provisional.
Length = 262
Score = 29.1 bits (66), Expect = 1.3
Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 13/67 (19%)
Query: 155 MGGLPDLMFVVDTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALF 214
G +PDL ++T L ++ R L +P++A V+ V G + ++AL
Sbjct: 74 GGAMPDLGESIETFYNPL-VRRLRALPLPVIAAVNG---------VAAG---AGANLALA 120
Query: 215 CDLVASA 221
CD+V +A
Sbjct: 121 CDIVLAA 127
>gnl|CDD|172646 PRK14158, PRK14158, heat shock protein GrpE; Provisional.
Length = 194
Score = 28.7 bits (64), Expect = 1.9
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 193 NPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTKSAGETVVHSKEG 250
N L+ ++P D+ R++ + SA I+GI S + + K G T V +++G
Sbjct: 89 NESLILEILPAVDNMERALDHADEESMSAIIEGIRMTLSMLLSTLKKFGVTPVEAEKG 146
>gnl|CDD|162195 TIGR01082, murC, UDP-N-acetylmuramate--alanine ligase.
UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-
diaminopimelate ligase (murein tripeptide ligase) is
described by TIGR01081.
Length = 448
Score = 27.3 bits (61), Expect = 4.7
Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 166 DTNREKLAIQEARRLRIPIV 185
D N E I EA+ IP++
Sbjct: 70 DDNPE---IVEAKERGIPVI 86
>gnl|CDD|183692 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 27.0 bits (61), Expect = 5.0
Identities = 9/39 (23%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 114 QKLRDLEELLNKENQGFTKKERLNIERKRDKLKRALDGI 152
++L EE L+++ + K+E +E+K +L++ +
Sbjct: 89 KRLLQKEENLDRKLELLEKREE-ELEKKEKELEQKQQEL 126
>gnl|CDD|179218 PRK01077, PRK01077, cobyrinic acid a,c-diamide synthase; Validated.
Length = 451
Score = 26.6 bits (60), Expect = 6.6
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 177 ARRLRIPIVAVVD 189
A+ L P+V VVD
Sbjct: 110 AKLLGAPVVLVVD 122
>gnl|CDD|132204 TIGR03160, cobT_DBIPRT,
nicotinate-nucleotide--dimethylbenzimidazole
phosphoribosyltransferase. Members of this family are
nicotinate-nucleotide--dimethylbenzimidazole
phosphoribosyltransferase, an enzyme of cobalamin
biosynthesis.
Length = 333
Score = 26.7 bits (60), Expect = 7.0
Identities = 18/75 (24%), Positives = 29/75 (38%), Gaps = 16/75 (21%)
Query: 138 IERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIV---------AVV 188
+ R R LD + +GG ++ + AI A RIP++ A+V
Sbjct: 208 LARHRPNAGDPLDVLAKVGGF-EIAAMAG------AILGAAARRIPVLVDGFISTAAALV 260
Query: 189 DTNSNPDLVDYVIPG 203
P + DY+I
Sbjct: 261 AVRLAPGVRDYLIAS 275
>gnl|CDD|180192 PRK05673, dnaE, DNA polymerase III subunit alpha; Validated.
Length = 1135
Score = 26.6 bits (60), Expect = 7.9
Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 2/21 (9%)
Query: 168 NREKLA--IQEARRLRIPIVA 186
N +K+A + E RR+ I ++
Sbjct: 781 NTDKVAVYLDECRRMGIKVLP 801
>gnl|CDD|161715 TIGR00113, queA, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase. This model describes the
enzyme for S-adenosylmethionine:tRNA
ribosyltransferase-isomerase (QueA). QueA synthesizes
Queuosine which is usually in the first position of the
anticodon of tRNAs specific for asparagine, aspartate,
histidine, and tyrosine.
Length = 344
Score = 26.6 bits (59), Expect = 7.9
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 41 HIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSAQYCVN 95
H++ ++ + Q+ ++ ++ T GGRI+ V T S S +E+A + A +
Sbjct: 224 HVMH-AEYYEVPQETVEALNKTRENGGRIIAVGTTSVRS---LESAAQEADGLIE 274
>gnl|CDD|163312 TIGR03535, DapD_actino,
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate
N-succinyltransferase. Alternate name:
tetrahydrodipicolinate N-succinyltransferase.
Length = 319
Score = 26.6 bits (59), Expect = 8.1
Identities = 23/59 (38%), Positives = 29/59 (49%), Gaps = 10/59 (16%)
Query: 149 LDGIRDMGGLPDLMFVVDTNREKLAIQ--EARRLRIP---IVAVVDTNSNPDLVDYVIP 202
LDGI G LP+ VV TN A+ E R R+ V V + P +VDYV+P
Sbjct: 98 LDGI--FGLLPN---VVWTNHGPCAVDDFELTRARLRARGPVTVYSVDKFPRMVDYVVP 151
>gnl|CDD|119297 pfam10777, YlaC, Extracytoplasmic function sigma factor YlaC.
YlaC, regulated by YlaA, is important in oxidative
stress resistance. It contributes to hydrogen peroxide
resistance in Bacillus subtilis.
Length = 156
Score = 26.2 bits (58), Expect = 8.9
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 134 ERLNIERKRD-KLKRALDGIRDMGGLPDLMFV 164
ER+N E KRD K + + IR L M
Sbjct: 13 ERINREEKRDNKPRFSSSFIRKHPYLFLAMLA 44
>gnl|CDD|150862 pfam10256, Erf4, Golgin subfamily A member 7/ERF4 family. This
family of proteins includes Golgin subfamily A member 7
proteins as well as Ras modification protein ERF4.
Length = 118
Score = 26.4 bits (59), Expect = 9.0
Identities = 9/56 (16%), Positives = 19/56 (33%), Gaps = 9/56 (16%)
Query: 92 YCVNSKW--LGGMM-------TNWKTVSQSIQKLRDLEELLNKENQGFTKKERLNI 138
+ S L G++ + + + L LE+ + + N+ L I
Sbjct: 50 FEPISWRNLLEGILGCLTLYLWSLILKTHYKRTLAKLEKYIEELNERLYHPRGLKI 105
>gnl|CDD|182860 PRK10949, PRK10949, protease 4; Provisional.
Length = 618
Score = 26.2 bits (58), Expect = 9.5
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 6/34 (17%)
Query: 214 FCDLVASA------AIDGIARQHSYMGADTKSAG 241
F LVA + ID IA+ H + G D K+ G
Sbjct: 488 FITLVADSRHKTPEQIDKIAQGHVWTGQDAKANG 521
>gnl|CDD|180089 PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate
reductoisomerase; Provisional.
Length = 385
Score = 26.2 bits (59), Expect = 9.8
Identities = 28/91 (30%), Positives = 34/91 (37%), Gaps = 15/91 (16%)
Query: 148 ALDGIRDMGGLPDLMFVV----DTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPG 203
LD IR PD VV N E LA Q AR R V V D + +L + +
Sbjct: 17 TLDVIRR---NPDRFRVVALSAGKNVELLAEQ-AREFRPKYVVVADEEAAKELKEALAAA 72
Query: 204 NDDSSRSIALFCDLVAS-------AAIDGIA 227
+ C+L A AAI G A
Sbjct: 73 GIEVLAGEEGLCELAALPEADVVVAAIVGAA 103
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 0.372
Gapped
Lambda K H
0.267 0.0670 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,411,810
Number of extensions: 277149
Number of successful extensions: 682
Number of sequences better than 10.0: 1
Number of HSP's gapped: 679
Number of HSP's successfully gapped: 40
Length of query: 278
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 186
Effective length of database: 4,006,537
Effective search space: 745215882
Effective search space used: 745215882
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: 56 (25.5 bits)