RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780288|ref|YP_003064701.1| exodeoxyribonuclease III
protein [Candidatus Liberibacter asiaticus str. psy62]
(281 letters)
>gnl|CDD|31052 COG0708, XthA, Exonuclease III [DNA replication, recombination, and
repair].
Length = 261
Score = 290 bits (745), Expect = 2e-79
Identities = 109/263 (41%), Positives = 159/263 (60%), Gaps = 9/263 (3%)
Query: 6 VATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNY-HIETCGQKS 64
+A+WNVN +RAR+ L W++E PD++CLQETK +D+ FP E L++L Y H+ GQK
Sbjct: 3 IASWNVNGLRARLKKLLDWLEEEQPDVLCLQETKAQDEQFPREELEALGYHHVFNHGQKG 62
Query: 65 YNGVAILSKYQPIEIVTHLPG-DDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITSTK 123
Y+GVAILSK P ++ PG ++ D + R IEA F R+ NLY P+G+ I K
Sbjct: 63 YSGVAILSKKPPDDVRRGFPGEEEDDEEGRVIEAEF----DGFRVINLYFPNGSSIGLEK 118
Query: 124 YDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNP---IIWENDACFTLEVR 180
+D K+ ++ + + L+ +P++ GD+NI P+ D NP + E ++ F E R
Sbjct: 119 FDYKLRFLDALRNYLEELLKKGKPVVLCGDFNIAPEEIDVANPKKRWLNEGNSGFLPEER 178
Query: 181 QSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSAR 240
F++L N GF D R H Y++WDY A++ +N+G RID+I++SP L A
Sbjct: 179 AWFRRLLNAGFVDTFRLFHPEPEKYTWWDYRANAARRNRGWRIDYILVSPALADRLKDAG 238
Query: 241 IDTKPRGWTKPSDHTPVIVSLDI 263
ID + RGW KPSDH PV V LD+
Sbjct: 239 IDREVRGWEKPSDHAPVWVELDL 261
>gnl|CDD|146159 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease/phosphatase
family. This large family of proteins includes
magnesium dependent endonucleases and a large number of
phosphatases involved in intracellular signalling. This
family includes: AP endonuclease proteins EC:4.2.99.18,
DNase I proteins EC:3.1.21.1, Synaptojanin an
inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56,
Sphingomyelinase EC:3.1.4.12 and Nocturnin.
Length = 255
Score = 140 bits (354), Expect = 5e-34
Identities = 66/273 (24%), Positives = 105/273 (38%), Gaps = 33/273 (12%)
Query: 4 VTVATWNVNSIRARIHN-----LAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIE 58
+ + TWNVN + A + L +K +PD+ICLQETK ++ L L Y
Sbjct: 1 LKILTWNVNGLSAALKLLWARLLLELLKLEDPDVICLQETKLSPESLILLLLLLLGYVSP 60
Query: 59 T---------CGQKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIG 109
G GVAILSK +E++ + ++ + FI N ++ +
Sbjct: 61 LTSSVYTGFGGGGGGKGGVAILSKEPLVEVILGIFSEN---EKDFIRRRILANGKSFVVV 117
Query: 110 NLYLPHGNPITSTKYDDKISWIKRFLRF-ASQRLELEEPLIFAGDYNIIPQPHDCYNPII 168
N +LP G D++++ + L F + R+ +P+I GD+N P D
Sbjct: 118 NTHLPAG----GENLDERLAQLAELLDFLSDLRIPKSDPVILCGDFNARPDSWDSALLKS 173
Query: 169 WENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIML 228
F L R ++W Y S KN G R+D I++
Sbjct: 174 IGKSTLFLLLERD---------LVFDGFDELPIGFPPTWWSYRNSSEKKNTGSRLDRILV 224
Query: 229 SPEATSLLHSARIDTKPRGWTKPSDHTPVIVSL 261
S + + SDH PV+ +L
Sbjct: 225 SGSLLRRVVILSLLLLVIF--TGSDHRPVLATL 255
>gnl|CDD|36508 KOG1294, KOG1294, KOG1294, Apurinic/apyrimidinic endonuclease and
related enzymes [Replication, recombination and repair].
Length = 335
Score = 65.0 bits (158), Expect = 2e-11
Identities = 60/278 (21%), Positives = 106/278 (38%), Gaps = 22/278 (7%)
Query: 3 VVTVATWNVNSIRARIHNLAA-WIKENNPDIICLQETKTEDKNFPFE--TLQSLNYHIET 59
V+ + W++ + A I D+ CL ETK + P T + + + +
Sbjct: 63 VLNICPWDIAGLEACEKFSGDPEISSELRDLQCLLETKCTIDSGPCSHPTEKGYTHSLLS 122
Query: 60 CGQKSYN--GVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPH-G 116
C K G SK++P++ H + R + + + N Y+P+ G
Sbjct: 123 CASKKDGYSGEIDYSKFKPLK--VHYGFGAMGSDHRPVGRVIIAEFEIFILINTYVPNIG 180
Query: 117 NPITSTKYDDKISWIKRFLRFASQRLE---LEEPLIFAGDYNIIPQPHDCYNPII-WEND 172
+ + Y W K ++ L+ P++ GD N+ + D P++ +
Sbjct: 181 GGLVNLVYRILDRWDKEIEEKRKKQSSSKNLKAPVVICGDLNVSHEEIDPSKPLVSPAGN 240
Query: 173 AC----FTLEVRQSFQK--LQNMGFTDAIRATH-DTHHLYSFWDYYADSWSKNKGIRIDH 225
FT E R SF L+ D R H D Y+FW Y + + G R D+
Sbjct: 241 TLSNAGFTPEERDSFFAELLEKGPLIDTYRELHKDQKKAYTFWKYMPNGRQRGHGERCDY 300
Query: 226 IMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDI 263
I++S + I ++P SDH P+ + +
Sbjct: 301 ILVSKPGPNNGRRFYICSRPIH---GSDHCPITLEFFL 335
>gnl|CDD|33370 COG3568, ElsH, Metal-dependent hydrolase [General function
prediction only].
Length = 259
Score = 52.7 bits (126), Expect = 1e-07
Identities = 50/292 (17%), Positives = 87/292 (29%), Gaps = 76/292 (26%)
Query: 6 VATWNVNS------IRARIHNLAAWIKENNPDIICLQE-----------------TKTED 42
V T+N++ R + +A I+E DI+ LQE
Sbjct: 12 VLTYNIHKGFGAFDRRFDLPRIAEVIREVGADIVALQEVDGAFGRHRDGLLDLPHLLGRL 71
Query: 43 KNFPFETLQSLNYHIETCGQKSYNGVAILSKYQPIEIVTH-LPGDDLDVQARFIEATFTI 101
P+ + + GQ +G AILS+ ++ LP + A +
Sbjct: 72 GLAPYWWSGAAFGAVYGEGQ---HGNAILSRLPIRDVENLALPDPTGLEPRGALLAEIEL 128
Query: 102 NT-QTLRIGNLYLPHGNPITSTKYDDKISWIKRFLRFASQRLE------LEEPLIFAGDY 154
+ LR+ N +L + + L P + GD+
Sbjct: 129 PGGKPLRVINAHL---------------GLSEESRLRQAAALLALAGLPALNPTVLMGDF 173
Query: 155 NIIPQPHDCYNPIIWENDACFTLEVRQSFQKLQNMGFTDAIRATHDTHHLYSFWDYYADS 214
N P + + A L + T A +
Sbjct: 174 NNEPGSAE------YRLAARSPLNAQ--------AALTGAFAPAV---------GRTIRT 210
Query: 215 WSKNKG-IRIDHIMLSPEATSLLHSARIDTKPRGWTKPSDHTPVIVSLDIPE 265
+ N +R+D I +S E + S + T SDH P++ L + +
Sbjct: 211 FPSNTPLLRLDRIFVSKEL--AIRSVHVLTDR-LARVASDHLPLLAELRLKD 259
>gnl|CDD|37967 KOG2756, KOG2756, KOG2756, Predicted Mg2+-dependent
phosphodiesterase TTRAP [Signal transduction
mechanisms].
Length = 349
Score = 41.2 bits (96), Expect = 4e-04
Identities = 20/77 (25%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 2 SVVTVATWNV-----NSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYH 56
S+ ++ TWN+ N++ R+ + ++ +PD+I LQE + + S NY
Sbjct: 98 SMFSLITWNIDGLDLNNLSERMRAVCHYLALYSPDVIFLQEVIPPYYS-YLKKRSS-NYE 155
Query: 57 IETCGQKSYNGVAILSK 73
I T ++ Y +L K
Sbjct: 156 IITGHEEGYFTAIMLKK 172
>gnl|CDD|32837 COG3021, COG3021, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 309
Score = 41.1 bits (96), Expect = 4e-04
Identities = 40/258 (15%), Positives = 73/258 (28%), Gaps = 41/258 (15%)
Query: 2 SVVTVATWNVNSIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNYHIETCG 61
++ NV A + L + I++ + D + E I
Sbjct: 87 RLLWNLQKNVRFDNASVAKLLSLIQQLDADAVTTPEGVQLWTAKVGALAAQYPAFILCQH 146
Query: 62 QKSYNGVAILSKYQPIEIVTHLPGDDLDVQARFIEATFTINTQTLRIGNLYLPHGNPITS 121
+AILS+ + P L ++ A + L + L+ P+ +
Sbjct: 147 PTGVFTLAILSRRPCCPLTEAEPWLRLP-KSALATAYPLPDGTELTVVALH-AVNFPVGT 204
Query: 122 TKYDDKISWIKRFLRFASQRLELEEPLIFAGDYNIIPQPHDCYNPIIWENDACFTLEVRQ 181
++ + + P+I AGD+N P W A ++
Sbjct: 205 DPQRAQLLELGDQIA------GHSGPVILAGDFNAPP----------WSRTA------KR 242
Query: 182 SFQKLQNMGFTDAIRATHDTHHLYSFWDYYADSWSKNKGIRIDHIMLSPEATSLLHSARI 241
A F D + G+ IDH+ +
Sbjct: 243 MAALGGLRAAPRAGLW------EVRFTP---DERRRAFGLPIDHVFYR--------GLTV 285
Query: 242 DTKPRGWTKPSDHTPVIV 259
R + SDH P++V
Sbjct: 286 MKARRLPDRGSDHRPLLV 303
>gnl|CDD|37549 KOG2338, KOG2338, KOG2338, Transcriptional effector CCR4-related
protein [Transcription].
Length = 495
Score = 29.6 bits (66), Expect = 0.95
Identities = 23/73 (31%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 16 ARIHNLAAWIKENNPDIICLQET-KTEDKNFPFETLQSLNY---HIETCGQKSYNGVAIL 71
R NL +K +PD++CLQE + F L L Y G K+ +GVAIL
Sbjct: 149 RRSQNLLNELKHYDPDVLCLQEVQEDHYPEFWQPLLGKLGYTGFFKRRTGTKT-HGVAIL 207
Query: 72 SKYQPIEIVTHLP 84
++V H
Sbjct: 208 WHSAKFKLVNHSE 220
>gnl|CDD|35839 KOG0620, KOG0620, KOG0620, Glucose-repressible alcohol
dehydrogenase transcriptional effector CCR4 and related
proteins [Transcription].
Length = 361
Score = 28.8 bits (64), Expect = 1.8
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 13 SIRARIHNLAAWIKENNPDIICLQETKTEDKNFPFETLQSLNY 55
S R L I N DI+CLQE +F L++ Y
Sbjct: 47 SWEYRRQLLLEEILNYNADILCLQEVDRYH-DFFSPELEASGY 88
>gnl|CDD|39037 KOG3833, KOG3833, KOG3833, Uncharacterized conserved protein,
contains RtcB domain [Function unknown].
Length = 505
Score = 28.0 bits (62), Expect = 2.7
Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 169 WENDACFTLEVRQSFQKLQNMGFTDA-IRATHDTHH 203
W N + T RQ+F K+ N D + +D H
Sbjct: 318 WVNRSSMTFLTRQAFAKVFNTSPDDLDLHVIYDVSH 353
>gnl|CDD|32521 COG2374, COG2374, Predicted extracellular nuclease [General
function prediction only].
Length = 798
Score = 28.1 bits (62), Expect = 3.0
Identities = 20/97 (20%), Positives = 34/97 (35%), Gaps = 18/97 (18%)
Query: 184 QKLQNMGFTD--AIRATHDTHHLYSFWDYY---------ADSWSKNKGIRIDHIMLSPEA 232
Q L+ G+ + A + Y F A ++ G HI + E
Sbjct: 693 QALEGAGYMNLAARFHDAGDRYSYVFNGQSGTLDHALASASLAAQVSGATEWHIN-ADEP 751
Query: 233 TSLLHSARI------DTKPRGWTKPSDHTPVIVSLDI 263
+L ++ K + SDH PV+V L++
Sbjct: 752 DALDYNLEFKGQNVSLYKTTNPFRASDHDPVVVGLNL 788
>gnl|CDD|38922 KOG3718, KOG3718, KOG3718, Carnitine O-acyltransferase CROT [Lipid
transport and metabolism].
Length = 609
Score = 26.5 bits (58), Expect = 8.9
Identities = 12/55 (21%), Positives = 16/55 (29%), Gaps = 16/55 (29%)
Query: 169 WENDACFTLEVRQSFQKLQNMGFTDAI--------------RATHDTHHLYSFWD 209
W + A L +R MG + A HH S+WD
Sbjct: 85 WYDYA--YLLIRMPLLPYVLMGAPSQLFMVGVPETDGYQLESAARHIHHSLSYWD 137
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
0.319 0.134 0.419
Gapped
Lambda K H
0.267 0.0594 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,583,030
Number of extensions: 185233
Number of successful extensions: 476
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 21
Length of query: 281
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 188
Effective length of database: 4,254,100
Effective search space: 799770800
Effective search space used: 799770800
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: 57 (26.0 bits)