RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780949|ref|YP_003065362.1| tyrosyl-tRNA synthetase
[Candidatus Liberibacter asiaticus str. psy62]
(418 letters)
>gnl|CDD|180311 PRK05912, PRK05912, tyrosyl-tRNA synthetase; Validated.
Length = 408
Score = 531 bits (1371), Expect = e-151
Identities = 174/412 (42%), Positives = 236/412 (57%), Gaps = 10/412 (2%)
Query: 3 AFKSDFLSILSERGFIHQISNPRELDILCSQGVVTAYIGYDLTASSLHAGHLTQLMLLFW 62
S+ L L ERG I QI++ EL+ ++ + Y+G+D TA SLH GHL L+ L
Sbjct: 1 MSMSNLLEELKERGLIEQITDEEELEEKLAKEPLRIYLGFDPTAPSLHLGHLVPLLKLRR 60
Query: 63 LQKTGHKPISLMGGGTSIIGDPSFRDESRRMMRSQEIQENIEKIKGIFSSFIKYGTGKTD 122
Q GHKPI+L+GG T +IGDPS + E+R+++ +++ EN E IK F+ + K
Sbjct: 61 FQDAGHKPIALIGGFTGMIGDPSGKSETRKLLTREQVAENAETIKEQLFKFLDFE--KDG 118
Query: 123 ALMLNNETWLCSIKYIDLLREIGSFFSVNRMLSFESVRSRLKREQSLSFLEFNYMILQAY 182
A ++NN WL + ID LR++G F+VNRML + + RL+ Q +SF EF Y +LQ Y
Sbjct: 119 AEIVNNSDWLGKLNAIDFLRDLGKHFTVNRMLERDDFKKRLREGQGISFTEFLYPLLQGY 178
Query: 183 DFVELAKNYDCRLQMGGSDQWGNIICGIDLGERLKTPKLFALTSPLLTTASGTKMGKTLS 242
DFV L K Y C LQ+GGSDQWGNI+ G DL R F LT PLLT G KMGK+
Sbjct: 179 DFVALNKRYGCDLQLGGSDQWGNILSGRDLQRRYGGKPQFGLTMPLLTGLDGKKMGKSEG 238
Query: 243 GAIWLNKEMTSPYNFWQYWRNIDDADVVSFAKRLTTLPMSEIDRMAK--LQGKEINEAKK 300
A+WL++E TSPY +Q W NI DADV + K LT L + EI+ + + +G EAKK
Sbjct: 239 NAVWLDEEKTSPYEMYQKWMNISDADVWRYLKLLTFLSLEEIEELEEELAEGPNPREAKK 298
Query: 301 IIATEITTMVHGREEAEKAATAAMECFDMSIHSQHMPTISISKDEVSRGMGLLTLIVKAG 360
++A EIT +VHG E AE A A F +P + E+ G+ LL L+V+AG
Sbjct: 299 VLAEEITALVHGEEAAEAAEEAFEALFGSGELPDDLPEV-----ELELGIDLLALLVEAG 353
Query: 361 FATSTNEARRHLKSNAIKINNSIISNEKLQIKLQDFDSTGNIKLSFGKKNHI 412
S +EARR +K +KIN +S+E + D L GKK
Sbjct: 354 LVPSKSEARRLIKQGGVKINGEKVSDENYVLTADDRF-GKYTVLQRGKKKFA 404
>gnl|CDD|183993 PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional.
Length = 410
Score = 447 bits (1153), Expect = e-126
Identities = 171/414 (41%), Positives = 237/414 (57%), Gaps = 12/414 (2%)
Query: 4 FKSDFLSILSERGFIHQISNPRELDILCSQG-VVTAYIGYDLTASSLHAGHLTQLMLLFW 62
K + L L RG I+Q ++ +L +G +T Y+G+D TA SLH GHL LM L
Sbjct: 1 MKMNILEQLKWRGAINQETDEEKLRKSLKEGKPLTLYLGFDPTAPSLHIGHLVPLMKLKR 60
Query: 63 LQKTGHKPISLMGGGTSIIGDPSFRDESRRMMRSQEIQENIEKIKGIFSSFIKYGTGKTD 122
Q GH+P+ L+GG T IGDPS + + R+++ +++Q N + KT+
Sbjct: 61 FQDAGHRPVILIGGFTGKIGDPSGKSKERKLLTDEQVQHNAKTYTEQIFKLF--DFEKTE 118
Query: 123 ALMLNNETWLCSIKYIDLLREIGSFFSVNRMLSFESVRSRLKREQSLSFLEFNYMILQAY 182
++NN WL + ID LR+ G F+VNRML + V+SRL+REQ +SF EF Y +LQAY
Sbjct: 119 --IVNNSDWLSKLNLIDFLRDYGKHFTVNRMLERDDVKSRLEREQGISFTEFFYPLLQAY 176
Query: 183 DFVELAKNYDCRLQMGGSDQWGNIICGIDLGERLKTPKLFALTSPLLTTASGTKMGKTLS 242
DFV L + D LQ+GG+DQWGNI+ G DL +L+ + F LT PLL A GTKMGK+
Sbjct: 177 DFVHLNRKEDVDLQIGGTDQWGNILMGRDLQRKLEGEEQFGLTMPLLEGADGTKMGKSAG 236
Query: 243 GAIWLNKEMTSPYNFWQYWRNIDDADVVSFAKRLTTLPMSEIDRMAKLQGKEIN--EAKK 300
GAIWL+ E TSPY F+Q+W NIDD DVV + K T L EID + E N +AKK
Sbjct: 237 GAIWLDPEKTSPYEFYQFWMNIDDRDVVKYLKLFTDLSPDEIDELEAQLETEPNPRDAKK 296
Query: 301 IIATEITTMVHGREEAEKAATAAMECFDMSIHS-QHMPTISISKDEVSRGMGLLTLIVKA 359
++A EIT VHG E AE+A F + + +PT +S + + L+ L+V
Sbjct: 297 VLAEEITKFVHGEEAAEEAEKIFKALFSGDVKPLKDIPTFEVSAETKN----LVDLLVDL 352
Query: 360 GFATSTNEARRHLKSNAIKINNSIISNEKLQIKLQDFDSTGNIKLSFGKKNHII 413
G S EARR +++ AIKIN +++ I +D + L GKK +
Sbjct: 353 GLEPSKREARRLIQNGAIKINGEKVTDVDAIINPEDAFDGKFVILRRGKKKFFL 406
>gnl|CDD|161781 TIGR00234, tyrS, tyrosyl-tRNA synthetase. This tyrosyl-tRNA
synthetase model starts picking up tryptophanyl-tRNA
synthetases at scores of 0 and below. The proteins found
by this model have a deep split between two groups. One
group contains bacterial and organellar eukaryotic
examples. The other contains archaeal and cytosolic
eukaryotic examples.
Length = 377
Score = 308 bits (790), Expect = 2e-84
Identities = 151/393 (38%), Positives = 213/393 (54%), Gaps = 16/393 (4%)
Query: 5 KSDFLSILSERGFIHQISNPRELDILCSQGVVTAYIGYDLTASSLHAGHLTQLMLLFWLQ 64
++ L +L +RG Q+ EL L + + Y+G+D TA SLH GHL L+ L Q
Sbjct: 1 MNNILLLLKKRGLEVQVPEEEELLKLLERKIK-LYVGFDPTAPSLHLGHLVPLLKLRDFQ 59
Query: 65 KTGHKPISLMGGGTSIIGDPSFRDESRRMMRSQEIQENIEKIKGIFSSFIKYGTGKTDAL 124
+ GH+ I L+G T++IGDPS + E R+++ +E+QEN E IK I A
Sbjct: 60 QAGHEVIVLLGDATALIGDPSGKSEERKLLTREEVQENAENIK----KQIARFLDFEKAK 115
Query: 125 MLNNETWLCSIKYIDLLREIGSFFSVNRMLSFESVRSRLKREQSLSFLEFNYMILQAYDF 184
+NN WL + YID +R++G FSVNRML ++ SRL+R +S EF Y +LQAYDF
Sbjct: 116 FVNNSEWLLKLNYIDFIRDLGKIFSVNRMLRRDAFSSRLERG--ISLSEFIYPLLQAYDF 173
Query: 185 VELAKNYDCRLQMGGSDQWGNIICGIDLGERLKTPKLFALTSPLLTTASGTKMGKTLSGA 244
V L + LQ+GGSDQWGNI G DL R F LT PLLT A G KMGK+ GA
Sbjct: 174 VYLNVD----LQIGGSDQWGNIRKGRDLIRRNLPSLGFGLTVPLLTPADGEKMGKSGGGA 229
Query: 245 IWLNKEMTSPYNFWQYWRNIDDADVVSFAKRLTTLPMSEIDRMAKLQGKEINEAKKIIAT 304
+ L++ Y+F+Q+W N D DV K T L + EI+ + +L+G E K+ +A
Sbjct: 230 VSLDEG---KYDFYQFWINTPDEDVKKILKLFTFLGLEEIEALVELKGPSPREVKENLAK 286
Query: 305 EITTMVHGREEAEKAATAAMECFDMSIHSQHMPTISISKDEVSRGMGLLTLIVKAGFATS 364
EIT VHG E A A + F ++ +P K + L L+V +G S
Sbjct: 287 EITKYVHGEEAALAAEEISEAIFSGGLNPDELPIFRPEK--FGGDITLADLLVLSGLFPS 344
Query: 365 TNEARRHLKSNAIKINNSIISNEKLQIKLQDFD 397
+EARR +K + IN +++ + K D +
Sbjct: 345 KSEARRDIKQGGVYINGEKVTDLEPIRKEADDN 377
>gnl|CDD|128657 smart00363, S4, S4 RNA-binding domain.
Length = 60
Score = 38.0 bits (89), Expect = 0.004
Identities = 13/56 (23%), Positives = 26/56 (46%)
Query: 354 TLIVKAGFATSTNEARRHLKSNAIKINNSIISNEKLQIKLQDFDSTGNIKLSFGKK 409
+ + G A S ++AR+ ++ +K+N ++ +K D S +L KK
Sbjct: 5 KFLARLGLAPSRSQARKLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRLKK 60
>gnl|CDD|149984 pfam09126, NaeI, Restriction endonuclease NaeI. Members of this
family adopt a secondary structure consisting of nine
alpha-helices, six 3-10 helices and 13 beta-strands.
They bind two GCC-CGG recognition sequences to cleave
DNA into blunt-ended products.
Length = 291
Score = 35.2 bits (81), Expect = 0.031
Identities = 30/134 (22%), Positives = 46/134 (34%), Gaps = 27/134 (20%)
Query: 183 DFVELAKNYDCRLQMGGSD------QWGNIICGIDLGERLK--TPKLFALTSPLLTTASG 234
D V L + D +L M G + +I + E L LT
Sbjct: 74 DTVILGVDVDIKLTMSGGNWMIPTEAIDSICLLVAADEVRARWYLGLIVARPDYLTRGQN 133
Query: 235 TKMGKTLSGA-----IWLNKEMTSPYNFWQYWRNIDDADVVS-FAKRLTTLPMSEIDRMA 288
++L+ +WL ++ P NF ++ D + FA P S RMA
Sbjct: 134 KDGKRSLTAEGRAAVLWLWRDHPLPENF---LLHLPDDVREAIFA------PKSGNARMA 184
Query: 289 KL----QGKEINEA 298
+L QG+ I
Sbjct: 185 ELFRRVQGRPIPRD 198
>gnl|CDD|181563 PRK08841, PRK08841, aspartate kinase; Validated.
Length = 392
Score = 33.6 bits (77), Expect = 0.090
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 21/90 (23%)
Query: 18 IHQISNPRELDILCSQG--VVTAYIGYDLTASSLHAGHLTQLMLLFWLQKTGHKPISLMG 75
+ + RELD+L S G V A L A +L+ K G+ SL G
Sbjct: 57 VDSVPTARELDVLLSAGEQVSMA-----LLAMTLN--------------KLGYAARSLTG 97
Query: 76 GGTSIIGDPSFRDESRRMMRSQEIQENIEK 105
+I+ D D + + + + I E +E+
Sbjct: 98 AQANIVTDNQHNDATIKHIDTSTITELLEQ 127
>gnl|CDD|179048 PRK00499, rnpA, ribonuclease P; Reviewed.
Length = 114
Score = 32.1 bits (74), Expect = 0.27
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 159 VRSRLKREQSLSFLEFNYMILQAYDFVELAKNY 191
VR+R+KR SF E I + YDFV +A+
Sbjct: 53 VRNRIKRLIRESFRELKDEIKKGYDFVVIARKP 85
>gnl|CDD|178104 PLN02486, PLN02486, aminoacyl-tRNA ligase.
Length = 383
Score = 30.9 bits (70), Expect = 0.58
Identities = 26/117 (22%), Positives = 49/117 (41%), Gaps = 16/117 (13%)
Query: 39 YIGYDLTASSLHAGHLTQLMLLFWLQKTGHKP--ISLMGGGTSIIGDPSFRDESRRMMRS 96
Y G ++ +LH GHL M +LQ P I L + + S +ES+R+ R
Sbjct: 77 YTGRGPSSEALHLGHLIPFMFTKYLQDAFKVPLVIQLTDDEKFLWKNLSV-EESQRLAR- 134
Query: 97 QEIQENIEKIKGIFSSFIKYGTGKTDALMLNNETWLCSIKYIDLLREIGSFFSVNRM 153
EN + I I G + ++ ++ Y ++++ I ++N++
Sbjct: 135 ----ENAKDI-------IACGFDVERTFIFSDFDYVGGAFYKNMVK-IAKCVTLNQV 179
>gnl|CDD|181547 PRK08760, PRK08760, replicative DNA helicase; Provisional.
Length = 476
Score = 29.1 bits (65), Expect = 2.2
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 126 LNNETWLCSIKYIDLLREIGSFFSVNRMLSFESVRS---RLKREQSLSFLEFNYMIL 179
L +E W I +L+E F +S E +RS RLKRE L + +Y+ L
Sbjct: 294 LEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQL 350
>gnl|CDD|173172 PRK14709, PRK14709, hypothetical protein; Provisional.
Length = 469
Score = 27.8 bits (62), Expect = 5.5
Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 316 AEKAATAAMECFDMSIHSQHMPT 338
+ A TAAM+ F S H +H PT
Sbjct: 230 GDYATTAAMDTFTASKHDRH-PT 251
>gnl|CDD|177303 PHA00735, PHA00735, hypothetical protein.
Length = 808
Score = 27.2 bits (60), Expect = 8.0
Identities = 13/27 (48%), Positives = 14/27 (51%)
Query: 230 TTASGTKMGKTLSGAIWLNKEMTSPYN 256
+T S G TLS A WLN S YN
Sbjct: 52 STFSSKYNGSTLSTAPWLNPTYISVYN 78
>gnl|CDD|182352 PRK10279, PRK10279, hypothetical protein; Provisional.
Length = 300
Score = 27.0 bits (60), Expect = 9.1
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 4/27 (14%)
Query: 116 YGTGKTDALMLNNETWLCSIKYIDLLR 142
Y + AL E W+ S Y D+LR
Sbjct: 50 YACDRLSAL----EDWVTSFSYWDVLR 72
>gnl|CDD|182196 PRK10017, PRK10017, colanic acid biosynthesis protein; Provisional.
Length = 426
Score = 27.0 bits (60), Expect = 9.1
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 183 DFVELAKNYDCRLQMGGS 200
DFV L YD +Q+GGS
Sbjct: 110 DFVRLLSGYDAIIQVGGS 127
>gnl|CDD|149809 pfam08864, UPF0302, UPF0302 domain. This family is known as
UPF0302. It is currently uncharacterized.
Length = 106
Score = 26.8 bits (60), Expect = 9.5
Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 162 RLKREQSLSFLEF---NYMILQAYDFVELAKNYDCRLQMG--GSDQWG 204
+LKR +++ L + + +L+ FVE A Y L++ GS++
Sbjct: 14 QLKRREAVWILNYLKSHDHLLERVHFVENAIKYPRGLEISAVGSEEPP 61
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
0.320 0.134 0.392
Gapped
Lambda K H
0.267 0.0627 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,643,706
Number of extensions: 417648
Number of successful extensions: 857
Number of sequences better than 10.0: 1
Number of HSP's gapped: 842
Number of HSP's successfully gapped: 26
Length of query: 418
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 322
Effective length of database: 3,920,105
Effective search space: 1262273810
Effective search space used: 1262273810
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.3 bits)