RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780218|ref|YP_003064631.1| thymidylate kinase [Candidatus
Liberibacter asiaticus str. psy62]
(225 letters)
>gnl|CDD|184429 PRK13973, PRK13973, thymidylate kinase; Provisional.
Length = 213
Score = 271 bits (696), Expect = 9e-74
Identities = 111/219 (50%), Positives = 146/219 (66%), Gaps = 7/219 (3%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDEF 62
G FI+FEG EGAGK+T I LL L+ YDV VTREPGG+P AEA RHVLLS + +
Sbjct: 2 RGRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPGAEAIRHVLLSGAAELY 61
Query: 63 GAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSLQE 122
G EA++FAAAR DHVE VIRPAL GKI+LCDRF+DS+ AYQG + L +L+
Sbjct: 62 GPRMEALLFAAARDDHVEEVIRPALARGKIVLCDRFIDSTRAYQGVTGNVDPALLAALER 121
Query: 123 ISVQEVMPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQIFLDIAR 182
+++ VMPD T+ILD+P ++GL+R R R S D FE++D+ HEKRR+ FL IA
Sbjct: 122 VAINGVMPDLTLILDIPAEVGLERAAKR---RGSDTPDRFEKEDLAFHEKRREAFLQIAA 178
Query: 183 NQPDRCHIVDSAHSFQSVATNILNIVWELVQKRVSPLSS 221
+P+RC ++D+ S ++VA I W V +R+ SS
Sbjct: 179 QEPERCVVIDATASPEAVAAEI----WAAVDQRLLEASS 213
>gnl|CDD|179089 PRK00698, tmk, thymidylate kinase; Validated.
Length = 205
Score = 213 bits (545), Expect = 3e-56
Identities = 83/208 (39%), Positives = 128/208 (61%), Gaps = 9/208 (4%)
Query: 2 NSGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDE 61
G+FI+ EGI+GAGK+T I LLK L+++ DV TREPGGTP E R +LL +E
Sbjct: 1 MRGMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFTREPGGTPLGEKLRELLLDPN-EE 59
Query: 62 FGAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQG-ERDSSQHLFLDSL 120
+ E ++F AAR H+E VI+PAL GK ++ DRF+DSS AYQG R L L +L
Sbjct: 60 MDDKTELLLFYAARAQHLEEVIKPALARGKWVISDRFIDSSLAYQGGGRGLDIDL-LLAL 118
Query: 121 QEISVQEVMPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQIFLDI 180
+ ++ PD T+ LD+P ++GL R++ R LD E++ + E+ R+ +L++
Sbjct: 119 NDFALGGFRPDLTLYLDVPPEVGLARIRARGE------LDRIEQEGLDFFERVREGYLEL 172
Query: 181 ARNQPDRCHIVDSAHSFQSVATNILNIV 208
A +P+R ++D++ S + V +IL ++
Sbjct: 173 AEKEPERIVVIDASQSLEEVHEDILAVI 200
>gnl|CDD|161676 TIGR00041, DTMP_kinase, thymidylate kinase. Function:
phosphorylation of DTMP to form DTDP in both de novo and
salvage pathways of DTTP synthesis. Catalytic activity:
ATP + thymidine 5'-phosphate = ADP + thymidine
5'-diphosphate.
Length = 195
Score = 165 bits (421), Expect = 6e-42
Identities = 81/198 (40%), Positives = 121/198 (61%), Gaps = 8/198 (4%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDEF 62
G+FI EGI+GAGKTT +LLK+ LQ YDV TREPGGTP E R +LL+ +
Sbjct: 2 RGMFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTREPGGTPIGEKIRELLLNENDEPL 61
Query: 63 GAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSLQE 122
+AEA++FAA R +H+E+ I+PAL EGK+++ DR++ SS AYQG + L E
Sbjct: 62 TDKAEALLFAADRHEHLEDKIKPALAEGKLVISDRYVFSSIAYQGGARGIDEDLVLELNE 121
Query: 123 ISVQEVMPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQIFLDIAR 182
++ + MPD TI LD+ ++ L+R++ R LD E + + EK RQ +L++A
Sbjct: 122 DALGD-MPDLTIYLDIDPEVALERLRKRGE------LDREEFEKLDFFEKVRQRYLELAD 174
Query: 183 NQPDRCHIVDSAHSFQSV 200
+ H++D+ +S + V
Sbjct: 175 KEK-SIHVIDATNSVEEV 191
>gnl|CDD|184431 PRK13976, PRK13976, thymidylate kinase; Provisional.
Length = 209
Score = 138 bits (350), Expect = 9e-34
Identities = 72/194 (37%), Positives = 107/194 (55%), Gaps = 23/194 (11%)
Query: 5 LFISFEGIEGAGKTTHISLLKRFLQRKNYDVH---VTREPGGTPAAEAARHVLLSCGVDE 61
+FI+FEGI+G+GKTT LL +L Y + +TREPGGT E R +LL +
Sbjct: 1 MFITFEGIDGSGKTTQSRLLAEYL-SDIYGENNVVLTREPGGTSFNELVRGLLL--SLKN 57
Query: 62 FGAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGER---DSSQHLFLD 118
+E ++F A R +H VI PAL++GKI++CDRF+DS+ AYQG D S L+
Sbjct: 58 LDKISELLLFIAMRREHFVKVILPALLQGKIVICDRFIDSTIAYQGYGCGVDLSLIRDLN 117
Query: 119 SLQEISVQEVMPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQIFL 178
L V + PD T +LD+ +++ L R A + +E D+ ++K R+ F
Sbjct: 118 DL----VVDKYPDITFVLDIDIELSLSR----------ADKNGYEFMDLEFYDKVRKGFR 163
Query: 179 DIARNQPDRCHIVD 192
+I P RCH++
Sbjct: 164 EIVIKNPHRCHVIT 177
>gnl|CDD|172477 PRK13974, PRK13974, thymidylate kinase; Provisional.
Length = 212
Score = 112 bits (282), Expect = 8e-26
Identities = 62/169 (36%), Positives = 93/169 (55%), Gaps = 7/169 (4%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKRF-----LQRKNYDVHVTREPGGTPAAEAARHVLLSC 57
G FI EGI+G GKTT I L ++ L K + +TREPGGT ++ R +LL
Sbjct: 2 KGKFIVLEGIDGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGGTLLGKSLRELLLDT 61
Query: 58 GVDEFGAE-AEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLF 116
D + AE +++AA R HV +IRPAL G ++ DRF S+ AYQG
Sbjct: 62 SKDNSPSPLAELLLYAADRAQHVSKIIRPALENGDWVISDRFSGSTLAYQGYGRGLDLEL 121
Query: 117 LDSLQEISVQEVMPDCTIILDLPVDIGLKRVQNRYSLR-ESACLDYFER 164
+ +L+ I+ Q + PD T L++ V+ ++R +NR R E+ +++ ER
Sbjct: 122 IKNLESIATQGLSPDLTFFLEISVEESIRRRKNRKPDRIEAEGIEFLER 170
>gnl|CDD|184430 PRK13975, PRK13975, thymidylate kinase; Provisional.
Length = 196
Score = 79.0 bits (195), Expect = 9e-16
Identities = 59/184 (32%), Positives = 94/184 (51%), Gaps = 25/184 (13%)
Query: 1 MNSGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVD 60
MN FI FEGI+G+GKTT LL L + T EP + R +L D
Sbjct: 1 MN--KFIVFEGIDGSGKTTQAKLLAEKL-----NAFWTCEPTDGKIGKLIREILSGSKCD 53
Query: 61 EFGAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSL 120
+ E A++FAA R++HV+ I L + + +CDR++ SS AYQ S Q + D +
Sbjct: 54 K---ETLALLFAADRVEHVKE-IEEDLKKRDV-VCDRYVYSSIAYQ----SVQGIDEDFI 104
Query: 121 QEISVQEVMPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQIFLDI 180
I+ PD +LD+ ++ LKR++ R + FE+K+ +K ++ +L++
Sbjct: 105 YSINRYAKKPDLVFLLDVDIEEALKRMETRDK-------EIFEKKE--FLKKVQEKYLEL 155
Query: 181 ARNQ 184
A N+
Sbjct: 156 ANNE 159
>gnl|CDD|178512 PLN02924, PLN02924, thymidylate kinase.
Length = 220
Score = 55.9 bits (135), Expect = 8e-09
Identities = 53/222 (23%), Positives = 91/222 (40%), Gaps = 27/222 (12%)
Query: 4 GLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDEFG 63
G I EG++ +GK+T + L FL+ + R P T + LS +
Sbjct: 16 GALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAELWRFPDRTTSVGQMISAYLSNK-SQLD 74
Query: 64 AEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSLQEI 123
A ++F+A R + + R L G L+ DR+ S A+ +++ L L+ +
Sbjct: 75 DRAIHLLFSANRWEKRSLMER-KLKSGTTLVVDRYSYSGVAFS----AAKGLDLEWCKAP 129
Query: 124 SVQEVMPDCTIILDLPVDIGLKR---VQNRYSLRESACLDYFERKDVMIHEKRRQIFLDI 180
V PD + LD+ + +R RY E F++K V F +
Sbjct: 130 EVGLPAPDLVLYLDISPEEAAERGGYGGERYEKLE------FQKK-VAKR------FQTL 176
Query: 181 ARNQPDRCHIVDSAHSFQSVATNILNIVWELVQKRV--SPLS 220
+ I+D++ S + V I +V + VQ+ + PLS
Sbjct: 177 ---RDSSWKIIDASQSIEEVEKKIREVVLDTVQRCLAGKPLS 215
>gnl|CDD|181172 PRK07933, PRK07933, thymidylate kinase; Validated.
Length = 213
Score = 48.8 bits (117), Expect = 1e-06
Identities = 43/170 (25%), Positives = 75/170 (44%), Gaps = 13/170 (7%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREP--GGTPAAEAARHVL-LSCG--VDE 61
I+ EG++GAGK T L+ L+ + V P G + A+ A L G D
Sbjct: 3 IAIEGVDGAGKRTLTEALRAALEARGRSVATLAFPRYGRSVHADLAAEALHGRHGDLADS 62
Query: 62 FGAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGER--DSSQHLFLDS 119
A A +FA R + + L +++ DR++ S+ AY R + +
Sbjct: 63 --VYAMATLFALDRAGARD-ELAGLLAAHDVVILDRYVASNAAYSAARLHQDADGEAVAW 119
Query: 120 LQEISVQEV---MPDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKD 166
+ E+ + +PD ++LD+PV++ +R + R + D +ER D
Sbjct: 120 VAELEFGRLGLPVPDLQVLLDVPVELAAERARRRAAQDADRARDAYERDD 169
>gnl|CDD|161686 TIGR00064, ftsY, signal recognition particle-docking protein FtsY.
There is a weak division between FtsY and SRP54; both
are GTPases. In E.coli, ftsY is an essential gene
located in an operon with cell division genes ftsE and
ftsX, but its apparent function is as the signal
recognition particle docking protein.
Length = 272
Score = 32.6 bits (75), Expect = 0.089
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDV 35
I F G+ G GKTT I+ L L+++ V
Sbjct: 75 ILFVGVNGVGKTTTIAKLANKLKKQGKSV 103
>gnl|CDD|163576 TIGR03864, PQQ_ABC_ATP, ABC transporter, ATP-binding subunit,
PQQ-dependent alcohol dehydrogenase system. Members of
this protein family are the ATP-binding subunit of an
ABC transporter system that is associated with PQQ
biosynthesis and PQQ-dependent alcohol dehydrogenases.
While this family shows homology to several efflux ABC
transporter subunits, the presence of a periplasmic
substrate-binding protein and association with systems
for catabolism of alcohols suggests a role in import
rather than detoxification.
Length = 236
Score = 32.3 bits (74), Expect = 0.11
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGV 59
G F++ G GAGK+T SLL R + + V G A R L GV
Sbjct: 26 PGEFVALLGPNGAGKSTLFSLLTRLYVAQEGQISV----AGHDLRRAPRAALARLGV 78
>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54;
Provisional.
Length = 437
Score = 31.7 bits (73), Expect = 0.15
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 11 GIEGAGKTTHISLLKRFLQRKNYDVHV 37
G++G+GKTT + L R+ ++K V +
Sbjct: 102 GLQGSGKTTTAAKLARYFKKKGLKVGL 128
>gnl|CDD|184937 PRK14974, PRK14974, cell division protein FtsY; Provisional.
Length = 336
Score = 31.5 bits (72), Expect = 0.16
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDV 35
I F G+ G GKTT I+ L +L++ + V
Sbjct: 143 IVFVGVNGTGKTTTIAKLAYYLKKNGFSV 171
>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54.
This model represents examples from the eukaryotic
cytosol of the signal recognition particle protein
component, SRP54. This GTP-binding protein is a
component of the eukaryotic signal recognition particle,
along with several other protein subunits and a 7S RNA.
Some species, including Arabidopsis, have several
closely related forms. The extreme C-terminal region is
glycine-rich and lower in complexity, poorly conserved
between species, and excluded from this model.
Length = 429
Score = 30.6 bits (69), Expect = 0.37
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDVHV 37
I F G++G+GKTT + L + QRK + +
Sbjct: 103 IMFVGLQGSGKTTTCTKLAYYYQRKGFKPCL 133
>gnl|CDD|178244 PLN02638, PLN02638, cellulose synthase A (UDP-forming), catalytic
subunit.
Length = 1079
Score = 30.3 bits (68), Expect = 0.47
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 16/72 (22%)
Query: 10 EGIEGAG-------KTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVL------LS 56
EG+EGAG + +SL KRF Q + E GG P + +L +S
Sbjct: 697 EGVEGAGFDDEKSLLMSQMSLEKRFGQSAVFVASTLMENGGVPQSATPESLLKEAIHVIS 756
Query: 57 CGVD---EFGAE 65
CG + ++G+E
Sbjct: 757 CGYEDKTDWGSE 768
>gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only detects
a fraction of this vast family. The poorly conserved
N-terminal helix is missing from the alignment.
Length = 148
Score = 30.0 bits (67), Expect = 0.56
Identities = 28/134 (20%), Positives = 40/134 (29%), Gaps = 13/134 (9%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDEF 62
G I G G+GKTT L R L V G E LL V
Sbjct: 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYI---DGEDILEEVLDQLLLIIVGGK 57
Query: 63 GAEAEAIVFAAARLDHVENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSLQE 122
A + L + L LD + + L L+ L+
Sbjct: 58 KASGSGELRLRLALALARKLKPDVL----------ILDEITSLLDAEQEALLLLLEELRL 107
Query: 123 ISVQEVMPDCTIIL 136
+ + + + T+IL
Sbjct: 108 LLLLKSEKNLTVIL 121
>gnl|CDD|177536 PHA03132, PHA03132, thymidine kinase; Provisional.
Length = 580
Score = 29.7 bits (67), Expect = 0.68
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 6 FISFEGIEGAGKTTHISLLKRFLQ 29
F+ EG+ G GKTT ++ ++ L
Sbjct: 259 FLFLEGVMGVGKTTLLNHMRGILG 282
>gnl|CDD|163420 TIGR03708, poly_P_AMP_trns, polyphosphate:AMP phosphotransferase.
Members of this protein family contain a domain
duplication. The characterized member from
Acinetobacter johnsonii is polyphosphate:AMP
phosphotransferase (PAP), which can transfer the
terminal phosphate from poly(P) to AMP, yielding ADP.
In the opposite direction, this enzyme can synthesize
poly(P). Each domain of this protein family is
homologous to polyphosphate kinase, an enzyme that can
run in the forward direction to extend a polyphosphate
chain with a new terminal phosphate from ATP, or in
reverse to make ATP (or GTP) from ADP (or GDP).
Length = 493
Score = 29.6 bits (67), Expect = 0.75
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARH 52
I EG +GAGK I+LL ++ + + H G P+ E
Sbjct: 43 ILIEGWDGAGKGETINLLNEWMDPRGIETH----AFGRPSDEERER 84
Score = 26.2 bits (58), Expect = 7.0
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 5/51 (9%)
Query: 5 LFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPA-AEAARHVL 54
L + FEG + AGK I + L + Y V P P E A+H L
Sbjct: 300 LVLVFEGWDAAGKGGAIRRVTEALDARQYRVV----PIAAPTDEEKAQHYL 346
>gnl|CDD|169051 PRK07667, PRK07667, uridine kinase; Provisional.
Length = 193
Score = 28.9 bits (65), Expect = 0.99
Identities = 8/28 (28%), Positives = 18/28 (64%)
Query: 10 EGIEGAGKTTHISLLKRFLQRKNYDVHV 37
+G+ +GKTT ++ LK ++++ H+
Sbjct: 23 DGLSRSGKTTFVANLKENMKQEGIPFHI 50
>gnl|CDD|179157 PRK00889, PRK00889, adenylylsulfate kinase; Provisional.
Length = 175
Score = 28.8 bits (65), Expect = 1.2
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 1 MNSGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHV 37
G+ + F G+ GAGKTT L L+ Y V V
Sbjct: 1 KQRGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEV 37
>gnl|CDD|180682 PRK06761, PRK06761, hypothetical protein; Provisional.
Length = 282
Score = 28.2 bits (63), Expect = 1.6
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 1 MNSGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVH 36
M + L I EG+ G GK+T +L L + +V
Sbjct: 1 MMTKLII-IEGLPGFGKSTTAKMLNDILSQNGIEVE 35
>gnl|CDD|131259 TIGR02204, MsbA_rel, ABC transporter, permease/ATP-binding protein.
This protein is related to a Proteobacterial ATP
transporter that exports lipid A and to eukaryotic
P-glycoproteins.
Length = 576
Score = 28.1 bits (63), Expect = 1.7
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 2 NSGLFISFEGIEGAGKTTHISLLKRF 27
G ++ G GAGK+T LL RF
Sbjct: 364 RPGETVALVGPSGAGKSTLFQLLLRF 389
>gnl|CDD|184529 PRK14133, PRK14133, DNA polymerase IV; Provisional.
Length = 347
Score = 28.1 bits (63), Expect = 1.9
Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 18/74 (24%)
Query: 118 DSLQEISVQEVMPDCTIILDLPV---------------DIGLKRVQNRYSLRESACLDYF 162
D ++ I+ ++++PD I+ LP+ +IG+ +++ L ++YF
Sbjct: 156 DGIKIIT-EDMIPD--ILKPLPISKVHGIGKKSVEKLNNIGIYTIEDLLKLSREFLIEYF 212
Query: 163 ERKDVMIHEKRRQI 176
+ V I+E+ R I
Sbjct: 213 GKFGVEIYERIRGI 226
>gnl|CDD|184315 PRK13768, PRK13768, GTPase; Provisional.
Length = 253
Score = 27.9 bits (63), Expect = 2.2
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 6 FISFEGIEGAGKTTHISLLKRFLQRKNYDV 35
+ F G G+GKTT L +L+ + YDV
Sbjct: 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDV 33
>gnl|CDD|129547 TIGR00455, apsK, adenylylsulfate kinase (apsK). Important
residue (active site in E.coli) is residue 100 of the
seed alignment.
Length = 184
Score = 27.4 bits (61), Expect = 2.7
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 4 GLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHV 37
G+ I G+ G+GK+T + L++ L+ K Y V+V
Sbjct: 18 GVVIWLTGLSGSGKSTIANALEKKLESKGYRVYV 51
>gnl|CDD|184307 PRK13760, PRK13760, putative RNA-associated protein; Provisional.
Length = 231
Score = 27.5 bits (62), Expect = 3.1
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 163 ERKDVMIHEKRRQIFLDIARN 183
E++ M+ EKRRQI IARN
Sbjct: 90 EQRREMLEEKRRQIINFIARN 110
>gnl|CDD|149480 pfam08433, KTI12, Chromatin associated protein KTI12. This is a
family of chromatin associated proteins which interact
with the Elongator complex, a component of the
elongating form of RNA polymerase II. The Elongator
complex has histone acetyltransferase activity.
Length = 266
Score = 27.2 bits (61), Expect = 3.2
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTRE 40
I G+ +GK+T L ++L+ K YDV V +
Sbjct: 2 IILTGLPSSGKSTRAKELAKYLEEKGYDVIVISD 35
>gnl|CDD|184214 PRK13657, PRK13657, cyclic beta-1,2-glucan ABC transporter;
Provisional.
Length = 588
Score = 27.2 bits (61), Expect = 3.8
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 7 ISFEGIEGAGKTTHISLLKRF 27
++ G GAGK+T I+LL+R
Sbjct: 364 VAIVGPTGAGKSTLINLLQRV 384
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc.
Length = 708
Score = 27.0 bits (60), Expect = 4.6
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 11 GIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVL 54
G+ G+GK+T LL F Q + G + RH L
Sbjct: 507 GMSGSGKSTLAKLLVGFFQAR----SGEILLNGFSLKDIDRHTL 546
>gnl|CDD|185227 PRK15327, PRK15327, type III secretion system needle complex
protein PrgH; Provisional.
Length = 393
Score = 26.7 bits (59), Expect = 4.7
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 5/52 (9%)
Query: 61 EFGAEAEAIVFAAARLDH---VENVIRPALMEGKILLCDRFLDSSYAYQGER 109
E G + +A+ ++ R DH V VI+ AL +G+I +F+DS Y G R
Sbjct: 306 EAGLKQQALPYS--RRDHKGSVTFVIQGALDDGEIQRARQFVDSYYRTWGGR 355
>gnl|CDD|184311 PRK13764, PRK13764, ATPase; Provisional.
Length = 602
Score = 26.7 bits (60), Expect = 4.8
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 4 GLFISFEGIEGAGKTTHISLLKRFLQRKNYDV 35
G+ I+ G GAGK+T L F V
Sbjct: 259 GILIA--GAPGAGKSTFAQALAEFYADMGKIV 288
>gnl|CDD|184129 PRK13543, PRK13543, cytochrome c biogenesis protein CcmA;
Provisional.
Length = 214
Score = 26.7 bits (59), Expect = 5.4
Identities = 11/53 (20%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 1 MNSGLFISFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHV 53
+++G + +G GAGKTT + +L L ++ + + + + +R +
Sbjct: 34 VDAGEALLVQGDNGAGKTTLLRVLAGLLHVESGQIQIDGKTATR--GDRSRFM 84
>gnl|CDD|183267 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 26.4 bits (59), Expect = 5.6
Identities = 14/47 (29%), Positives = 25/47 (53%)
Query: 130 PDCTIILDLPVDIGLKRVQNRYSLRESACLDYFERKDVMIHEKRRQI 176
PD I+L LP+DI + +++S +++ E K + +R QI
Sbjct: 547 PDARILLALPLDIDELVQRCPQLVQQSDTVEWDEAKGTLRAWRRLQI 593
>gnl|CDD|129833 TIGR00750, lao, LAO/AO transport system ATPase. Mutations have
also been found that do not phosphorylate the
periplasmic binding proteins, yet still allow
transport. The ATPase activity of this protein seems to
be necessary, however.
Length = 300
Score = 26.7 bits (59), Expect = 5.6
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 7 ISFEGIEGAGKTTHISLLKRFLQRKNYDVHV 37
+ G GAGK+T + L L+R+ V V
Sbjct: 37 VGITGTPGAGKSTLLEALGMELRRRGLKVAV 67
>gnl|CDD|130256 TIGR01188, drrA, daunorubicin resistance ABC transporter
ATP-binding subunit. This model describes daunorubicin
resistance ABC transporter, ATP binding subunit in
bacteria and archaea. This model is restricted in its
scope to preferentially recognize the ATP binding
subunit associated with effux of the drug,
daunorubicin. This transport system belong to the
larger ATP-Binding Cassette (ABC) transporter
superfamily. The characteristic feature of these
transporter is the obligatory coupling of ATP
hydrolysis to substrate translocation. The minimal
configuration of bacterial ABC transport system: an
ATPase or ATP binding subunit; An integral membrane
protein; a hydrophilic polypetpide, which likely
functions as substrate binding protein. In eukaryotes
proteins of similar function include p-gyco proteins,
multidrug resistance protein etc.
Length = 302
Score = 26.6 bits (59), Expect = 5.7
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 9/47 (19%)
Query: 2 NSGLFISFEGIEGAGKTTHISLLKRFLQRKN-------YDVHVTREP 41
G F G GAGKTT I +L L+ + YD V REP
Sbjct: 17 REGEVFGFLGPNGAGKTTTIRMLTTLLRPTSGTARVAGYD--VVREP 61
>gnl|CDD|162112 TIGR00926, 2A1704, Peptide:H+ symporter (also transports b-lactam
antibiotics, the antitumor agent, bestatin, and various
protease inhibitors).
Length = 654
Score = 26.6 bits (59), Expect = 5.9
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 197 FQSVATNILNIVWELVQ 213
+ V+ N ++I+W++ Q
Sbjct: 555 VELVSVNTVSILWQIPQ 571
>gnl|CDD|130711 TIGR01650, PD_CobS, cobaltochelatase, CobS subunit. This model
describes the aerobic cobalamin pathway Pseudomonas
denitrificans CobS gene product, which is a cobalt
chelatase subunit, with a MW ~37 kDa. The aerobic
pathway cobalt chelatase is a heterotrimeric,
ATP-dependent enzyme that catalyzes cobalt insertion
during cobalamin biosynthesis. The other two subunits
are the P. denitrificans CobT (TIGR01651) and CobN
(pfam02514 CobN/Magnesium Chelatase) proteins. To avoid
potential confusion with the nonhomologous Salmonella
typhimurium/E.coli cobS gene product, the P.
denitrificans gene symbol is not used in the name of
this model.
Length = 327
Score = 26.5 bits (58), Expect = 6.0
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 10 EGIEGAGKTTHISLLKRFLQ----RKNYDVHVTR 39
+G G GK+THI + L R N D HV+R
Sbjct: 70 QGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSR 103
>gnl|CDD|180102 PRK05465, PRK05465, ethanolamine ammonia-lyase small subunit;
Provisional.
Length = 260
Score = 26.3 bits (59), Expect = 6.0
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 41 PGGTPAAEAARHVL 54
PGG P AEAA +
Sbjct: 214 PGGLPYAEAAAKIA 227
>gnl|CDD|167327 PRK02186, PRK02186, argininosuccinate lyase; Provisional.
Length = 887
Score = 26.3 bits (58), Expect = 6.2
Identities = 19/75 (25%), Positives = 29/75 (38%), Gaps = 4/75 (5%)
Query: 8 SFEGIEGAGKTTHISLLKRFLQRKNYDVHVTREPGGTPAAEAARHVLLSCGVDEFGAEAE 67
F IE T LL++ L R +T G P +A R V +S ++ +
Sbjct: 4 IFVFIESNTTGTGELLLRKALLRGFTPYFLTANRGKYPFLDAIRVVTISADT----SDPD 59
Query: 68 AIVFAAARLDHVENV 82
I + LD V +
Sbjct: 60 RIHRFVSSLDGVAGI 74
>gnl|CDD|130254 TIGR01186, proV, glycine betaine/L-proline transport ATP binding
subunit. This model describes the glycine
betaine/L-proline ATP binding subunit in bacteria and
its equivalents in archaea. This transport system
belong to the larger ATP-Binding Cassette (ABC)
transporter superfamily. The characteristic feature of
these transporter is the obligatory coupling of ATP
hydrolysis to substrate translocation. The minimal
configuration of bacterial ABC transport system: an
ATPase or ATP binding subunit; An integral membrane
protein; a hydrophilic polypetpide, which likely
functions as substrate binding protein. Functionally,
this transport system is involved in osmoregulation.
Under conditions of stress, the organism recruits these
transport system to accumulate glycine betaine and
other solutes which offer osmo-protection. It has been
demonstrated that glycine betaine uptake is accompanied
by symport with sodium ions. The locus has been named
variously as proU or opuA. A gene library from L.lactis
functionally complements an E.coli proU mutant. The
comlementing locus is similar to a opuA locus in
B.sutlis. This clarifies the differences in
nomenclature.
Length = 363
Score = 26.4 bits (58), Expect = 6.8
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 4 GLFISFEGIEGAGKTTHISLLKRFLQ 29
G G+ G+GK+T + +L R ++
Sbjct: 19 GEIFVIMGLSGSGKSTTVRMLNRLIE 44
>gnl|CDD|173501 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 26.1 bits (57), Expect = 6.8
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 11 GIEGAGKTTHISLLKRFLQRKNYDVHV 37
G G+GK+T +SLL RF KN D H+
Sbjct: 1201 GETGSGKSTVMSLLMRFYDLKN-DHHI 1226
>gnl|CDD|139929 PRK13869, PRK13869, plasmid-partitioning protein RepA; Provisional.
Length = 405
Score = 26.2 bits (57), Expect = 7.6
Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 14/88 (15%)
Query: 8 SFEGIEGAGKTTHISLLKRFLQRKNYDV-HVTREPGGTPAAEAARHVLLSCGVDEFGAEA 66
+F+G G+GKTT + L ++L + Y V V +P +A+ LL + E A
Sbjct: 128 NFKG--GSGKTTTSAHLAQYLALQGYRVLAVDLDP------QASLSALLGV-LPETDVGA 178
Query: 67 EAIVFAAARLDH----VENVIRPALMEG 90
++AA R D + +VIRP +G
Sbjct: 179 NETLYAAIRYDDTRRPLRDVIRPTYFDG 206
>gnl|CDD|130260 TIGR01192, chvA, glucan exporter ATP-binding protein. This model
describes glucan exporter ATP binding protein in
bacteria. It belongs to the larger ABC transporter
superfamily with the characteristic ATP binding motif.
The In general, this protein is in some ways implicated
in osmoregulation and suggested to participate in the
export of glucan from the cytoplasm to periplasm. The
cyclic beta-1,2-glucan in the bactrerial periplasmic
space is suggested to confer the property of high
osmolority. It has also been demonstrated that mutants
in this loci have lost functions of virulence and
motility. It is unclear as to how virulence and
osmoadaptaion are related.
Length = 585
Score = 26.0 bits (57), Expect = 8.2
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 3 SGLFISFEGIEGAGKTTHISLLKR 26
+G ++ G GAGKTT I+LL+R
Sbjct: 360 AGQTVAIVGPTGAGKTTLINLLQR 383
>gnl|CDD|132260 TIGR03216, OH_muco_semi_DH, 2-hydroxymuconic semialdehyde
dehydrogenase. Members of this protein family are
2-hydroxymuconic semialdehyde dehydrogenase. Many
aromatic compounds are catabolized by way of the
catechol, via the meta-cleavage pathway, to pyruvate and
acetyl-CoA. This enzyme performs the second of seven
steps in that pathway for catechol degradation.
Length = 481
Score = 25.8 bits (57), Expect = 8.2
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 46 AAEAARHVLLSCGVDEFGAEAEAIVFAAARLDH-VENVIRPALME-GKILLC 95
AA+ + V E G + AIVFA D V ++R A + G++ L
Sbjct: 239 AADGVKPVSF-----ELGGKNAAIVFADCDFDAAVAGILRSAFLNTGQVCLG 285
>gnl|CDD|182441 PRK10416, PRK10416, signal recognition particle-docking protein
FtsY; Provisional.
Length = 318
Score = 25.8 bits (58), Expect = 8.2
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 11 GIEGAGKTTHISLLKRFLQRKNYDV 35
G+ G GKTT I L + + V
Sbjct: 121 GVNGVGKTTTIGKLAHKYKAQGKKV 145
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
0.322 0.137 0.397
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,678,190
Number of extensions: 234643
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 596
Number of HSP's successfully gapped: 59
Length of query: 225
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 135
Effective length of database: 4,049,753
Effective search space: 546716655
Effective search space used: 546716655
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 (21.9 bits)
S2: 55 (24.9 bits)