RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780390|ref|YP_003064803.1| nucleoside diphosphate kinase
[Candidatus Liberibacter asiaticus str. psy62]
(140 letters)
>gnl|CDD|179085 PRK00668, ndk, mulitfunctional nucleoside diphosphate
kinase/apyrimidinic endonuclease/3'-; Validated.
Length = 134
Score = 219 bits (561), Expect = 2e-58
Identities = 70/132 (53%), Positives = 96/132 (72%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+E+TFS+IKPDAV+R LIG I+ E GL +VA K ++R+ AE Y HK++PFF E
Sbjct: 1 MERTFSIIKPDAVQRGLIGEIISRFEKKGLKIVALKMMQLSRELAEGHYAEHKEKPFFGE 60
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
LV+ M SGPV + VL+GE AI+K RE+MG T+P +A GTIR + +SIGEN +HGSDS
Sbjct: 61 LVEFMTSGPVVVMVLEGENAIAKVRELMGATNPAEAAPGTIRGDFALSIGENVVHGSDSP 120
Query: 123 KTALEEISYWFA 134
++A EI+ +F+
Sbjct: 121 ESAAREIALFFS 132
>gnl|CDD|128834 smart00562, NDK, These are enzymes that catalyze nonsubstrate
specific conversions of nucleoside diphosphates to
nucleoside triphosphates. These enzymes play important
roles in bacterial growth, signal transduction and
pathogenicity.
Length = 135
Score = 186 bits (475), Expect = 2e-48
Identities = 65/135 (48%), Positives = 92/135 (68%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+T ++IKPDAV+R LIG I+ E G +VA K + + AE+FY HK +PFF +L
Sbjct: 1 ERTLAIIKPDAVQRGLIGEIISRFERKGFKIVAMKMLQLTEELAEEFYAEHKGKPFFNDL 60
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLK 123
V+ M SGPV VL+GE+A+ R +MG TDP++A GTIR +G+ IG N++HGSDS +
Sbjct: 61 VEFMTSGPVVAMVLEGEDAVKTWRTLMGPTDPREAAPGTIRGDFGLDIGRNAVHGSDSPE 120
Query: 124 TALEEISYWFARNEI 138
+A EI+ +F +EI
Sbjct: 121 SAEREIALFFPESEI 135
>gnl|CDD|173387 PTZ00093, PTZ00093, nucleoside diphosphate kinase, cytosolic;
Provisional.
Length = 149
Score = 142 bits (359), Expect = 4e-35
Identities = 57/136 (41%), Positives = 87/136 (63%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+TF M+KPD V+R L+G I+K E G +VA K + AE+ Y HK +PFFP L
Sbjct: 3 ERTFIMVKPDGVQRGLVGEIIKRFEKKGYKLVALKMLQPTPEIAEEHYKEHKGKPFFPGL 62
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSLK 123
V+ + SGPV V +G+ + + R+++G T+P ++ GTIR + + +G N IHGSDS++
Sbjct: 63 VKYISSGPVVCMVWEGKNVVKQGRKLLGATNPLESAPGTIRGDFCVDVGRNVIHGSDSVE 122
Query: 124 TALEEISYWFARNEII 139
+A EI+ WF E++
Sbjct: 123 SAKREIALWFKPEELV 138
>gnl|CDD|184734 PRK14545, PRK14545, nucleoside diphosphate kinase; Provisional.
Length = 139
Score = 132 bits (333), Expect = 4e-32
Identities = 60/137 (43%), Positives = 84/137 (61%)
Query: 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFF 60
M +TF+MIKPDAV+ IG I+ + G +VA K + AE FY +H +RPF+
Sbjct: 1 MAGNRTFTMIKPDAVENGHIGGILDMITAAGFRIVAMKLTQLTVADAETFYAVHAERPFY 60
Query: 61 PELVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSD 120
ELV+ M GP+ +L+ E A+ R ++G T+P A +GTIR KY SIGEN++HGSD
Sbjct: 61 GELVEFMSRGPIVAAILEKENAVEDFRTLIGATNPADAAEGTIRKKYAKSIGENAVHGSD 120
Query: 121 SLKTALEEISYWFARNE 137
S + A E ++ FA E
Sbjct: 121 SDENAQIEGAFHFAGRE 137
>gnl|CDD|173007 PRK14541, PRK14541, nucleoside diphosphate kinase; Provisional.
Length = 140
Score = 125 bits (315), Expect = 4e-30
Identities = 55/137 (40%), Positives = 92/137 (67%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+E+T +++KPD V++ LIG+++ ++E G VVA K + ++ A +FY +H++RPF+ E
Sbjct: 1 MERTLTILKPDCVRKQLIGAVIDKIERAGFRVVAMKKTRLTKETAGEFYAVHRERPFYGE 60
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
LV+ M SGP +L+ E A++ R ++G TDP +A +GT+R Y S GEN +HGSDS
Sbjct: 61 LVEFMSSGPCVPMILEKENAVADFRTLIGATDPAEAAEGTVRKLYADSKGENIVHGSDSA 120
Query: 123 KTALEEISYWFARNEII 139
+ A E ++F+ E++
Sbjct: 121 ENAAIEAGFFFSAEEVV 137
>gnl|CDD|173008 PRK14542, PRK14542, nucleoside diphosphate kinase; Provisional.
Length = 137
Score = 119 bits (299), Expect = 2e-28
Identities = 56/136 (41%), Positives = 84/136 (61%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+ +TF MIKPD VK +G+I++ +E G ++ K+ ++ + A+ FY +H RPF+ +
Sbjct: 1 MSRTFIMIKPDGVKNKHVGNILQRIEKEGFKILGLKYLKLSLEDAKQFYKVHSARPFYND 60
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
L M SGP+ L+ + A+ REV+G TDPK+A GTIR Y S N++HGSDS
Sbjct: 61 LCNYMSSGPIVAAALERDNAVLHWREVIGATDPKEAAAGTIRALYAESKEANAVHGSDSD 120
Query: 123 KTALEEISYWFARNEI 138
A EIS++F NE+
Sbjct: 121 ANAALEISFFFKGNEL 136
>gnl|CDD|184733 PRK14540, PRK14540, nucleoside diphosphate kinase; Provisional.
Length = 134
Score = 118 bits (298), Expect = 4e-28
Identities = 54/133 (40%), Positives = 81/133 (60%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
E+TF +KPDAV+R LIG I++ E+ G +V K + R+ AE++Y HK + F+
Sbjct: 2 KERTFVALKPDAVERKLIGKIIQRFENKGFEIVEMKMLKLTREMAEEYYEEHKGKEFYER 61
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
L+ M SG + V++GE AIS R+++G T+P +A GTIR +G+ N IH SDS
Sbjct: 62 LINFMTSGRIVAMVIEGENAISTVRKMIGKTNPAEAEPGTIRGDFGLYTPANIIHASDSK 121
Query: 123 KTALEEISYWFAR 135
++A EI +F
Sbjct: 122 ESAEREIKLFFGE 134
>gnl|CDD|178228 PLN02619, PLN02619, nucleoside-diphosphate kinase.
Length = 238
Score = 114 bits (288), Expect = 6e-27
Identities = 57/137 (41%), Positives = 81/137 (59%)
Query: 3 IEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPE 62
+E+TF IKPD V+R LI I+ E G +VA K +++ A+ Y K+RPFF
Sbjct: 88 MERTFIAIKPDGVQRGLISEIISRFERKGFKLVAIKVVVPSKEFAQKHYHDLKERPFFNG 147
Query: 63 LVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIRNKYGISIGENSIHGSDSL 122
L + SGPV V +GE I R+++G TDP+K+ GTIR + +G N IHGSD
Sbjct: 148 LCDFLSSGPVVAMVWEGEGVIKYGRKLIGATDPQKSEPGTIRGDLAVVVGRNIIHGSDGP 207
Query: 123 KTALEEISYWFARNEII 139
+TA +EI+ WF E++
Sbjct: 208 ETAKDEINLWFKPEELV 224
>gnl|CDD|173009 PRK14543, PRK14543, nucleoside diphosphate kinase; Provisional.
Length = 169
Score = 105 bits (263), Expect = 4e-24
Identities = 59/155 (38%), Positives = 85/155 (54%), Gaps = 17/155 (10%)
Query: 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYL-----IHK 55
+I+KT +IKPD V+R LIG++V E GL +VAAK ++R AE YL +
Sbjct: 3 TLIQKTLCIIKPDGVRRGLIGNVVSRFERVGLKIVAAKMLLVDRSMAEKHYLYDDIAVRH 62
Query: 56 DRPFFPELVQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKALKGTIR----------- 104
+ L++ + S PVF+ V++G E++ R+ G T+PK A+ GTIR
Sbjct: 63 GEAVWKSLIKFISSSPVFVFVVEGVESVEVVRKFCGSTEPKLAIPGTIRGDFSYHSFNYA 122
Query: 105 NKYGISIGENSIHGSDSLKTALEEISYWFARNEII 139
N+ G S+ N IH S + AL EI WF NEI+
Sbjct: 123 NEKGFSV-YNVIHASANEDDALREIPIWFKDNEIL 156
>gnl|CDD|173010 PRK14544, PRK14544, nucleoside diphosphate kinase; Provisional.
Length = 183
Score = 104 bits (261), Expect = 8e-24
Identities = 60/182 (32%), Positives = 81/182 (44%), Gaps = 43/182 (23%)
Query: 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYL-------- 52
M IE+T ++KPDAVKR L+G I+ E GL +VA K +Q E FY
Sbjct: 1 MPIERTLVILKPDAVKRGLVGEIISRFEKAGLKIVAMKMVKATPEQIERFYPSSEEWYRS 60
Query: 53 -------IHKDRPFFPE------------------LVQAMISGPVFLQVLKGEEAISKNR 87
+++ P LV+ M SGP+ VLKG A+ R
Sbjct: 61 VGNKLLKAYQELGIDPRARLGTDDPVEVGKKVKESLVKYMTSGPIVAMVLKGNRAVEVVR 120
Query: 88 EVMGDTDPKKALKGTIRNKYGISIGE----------NSIHGSDSLKTALEEISYWFARNE 137
+++G T P KA GTIR Y I + N +H SDS + A EI +WF E
Sbjct: 121 KLVGPTSPHKAPPGTIRGDYSIDSPDLAAEEGRVVYNLVHASDSPEEAEREIKFWFREEE 180
Query: 138 II 139
I+
Sbjct: 181 IL 182
>gnl|CDD|178519 PLN02931, PLN02931, nucleoside diphosphate kinase family protein.
Length = 177
Score = 101 bits (252), Expect = 1e-22
Identities = 51/133 (38%), Positives = 76/133 (57%), Gaps = 3/133 (2%)
Query: 4 EKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPEL 63
E+T +MIKPD + N I + + + G +V ++ +A FY H R FFP L
Sbjct: 30 ERTLAMIKPDGLSGNYTERIKEVILESGFSIVKEMTTQLDEDRASLFYAEHSSRSFFPSL 89
Query: 64 VQAMISGPVFLQVLKGEEAISKNREVMGDTDPKKAL---KGTIRNKYGISIGENSIHGSD 120
V+ M SGPV + VL+ E A+S R ++G TD +KA +IR G+ +N +HGSD
Sbjct: 90 VKYMTSGPVLVMVLEKENAVSDWRTLIGPTDARKAKISHPNSIRAMCGLDSEKNCVHGSD 149
Query: 121 SLKTALEEISYWF 133
S ++A EIS++F
Sbjct: 150 SPESAEREISFFF 162
>gnl|CDD|178582 PLN03005, PLN03005, beta-fructofuranosidase.
Length = 550
Score = 33.1 bits (75), Expect = 0.026
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 1 MVIEKTFSMIKPDAVKRNLIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFY 51
M + SM+KPD R I IVK L + L + W++ + D Y
Sbjct: 281 MALRSALSMLKPDGDGREFIERIVKRL--HALSFHMRNYFWLDHQNLNDIY 329
>gnl|CDD|162463 TIGR01648, hnRNP-R-Q, heterogeneous nuclear ribonucleoprotein R, Q
family. Sequences in this subfamily include the human
heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q
and APOBEC-1 complementation factor (aka APOBEC-1
stimulating protein). These proteins contain three RNA
recognition domains (rrm: pfam00076) and a somewhat
variable C-terminal domain.
Length = 578
Score = 28.0 bits (62), Expect = 0.85
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 6/29 (20%)
Query: 2 VIEKTFSMIKPDAVKRNLIGSIVKELEDY 30
+IEK+FS KP V+R VK++ DY
Sbjct: 249 IIEKSFSEFKPGKVER------VKKIRDY 271
>gnl|CDD|163450 TIGR03738, PRTRC_C, PRTRC system protein C. A novel genetic
system characterized by six major proteins, included a
ParB homolog and a ThiF homolog, is designated PRTRC,
or ParB-Related,ThiF-Related Cassette. It is often
found on plasmids. This protein family is designated
PRTRC system protein C.
Length = 66
Score = 27.8 bits (62), Expect = 1.1
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 9/50 (18%)
Query: 42 MNRKQAEDFYLIHKDRPFFPELVQAMISGPVFLQVLKGEEAISKNREVMG 91
M+ +Q DFY +PEL+ A + GP V+KG R +G
Sbjct: 23 MSPEQVRDFYSAQ-----YPELLNAEVEGP----VVKGGVQTYTFRRAVG 63
>gnl|CDD|148062 pfam06230, DUF1009, Protein of unknown function (DUF1009).
Family of uncharacterized bacterial proteins.
Length = 212
Score = 27.0 bits (61), Expect = 1.6
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 14/46 (30%)
Query: 7 FSMIKPD-----------AVKRN---LIGSIVKELEDYGLCVVAAK 38
FS ++PD A++R L+ ++++E E+ G VV A
Sbjct: 27 FSPLRPDLRTLRLLPRLAALRRGDDALLRAVIREFEEEGFKVVGAH 72
>gnl|CDD|152501 pfam12066, DUF3546, Domain of unknown function (DUF3546). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 93 to 114 amino acids in length. This domain
has two completely conserved Y residues that may be
functionally important.
Length = 110
Score = 26.6 bits (59), Expect = 2.6
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 44 RKQAEDFYLIHKDRPFFPE 62
RKQ +DF+ HKD +F E
Sbjct: 31 RKQLQDFFDQHKDEEWFKE 49
>gnl|CDD|131756 TIGR02709, branched_ptb, branched-chain phosphotransacylase. This
model distinguishes branched-chain phosphotransacylases
like that of Enterococcus faecalis from closely related
subfamilies of phosphate butyryltransferase (EC
2.3.1.19) (TIGR02706) and phosphate acetyltransferase
(EC 2.3.1.8) (TIGR00651). Members of this family and of
TIGR02706 show considerable crossreactivity, and the
occurrence of a member of either family near an apparent
leucine dehydrogenase will suggest activity on branched
chain-acyl-CoA compounds.
Length = 271
Score = 25.9 bits (56), Expect = 3.9
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 65 QAMISGPVFLQVLKGEEAISKNR---EVMGDTD 94
+A + GP+ L + EEA++ R +MGD D
Sbjct: 181 EATVFGPLSLDLATSEEAVAHKRYSGPIMGDAD 213
>gnl|CDD|130402 TIGR01335, psaA, photosystem I core protein PsaA. The core
proteins of photosystem I are PsaA and PsaB, homologous
integral membrane proteins that form a heterodimer. The
heterodimer binds the electron-donating chlorophyll
dimer P700, as well as chlorophyll, phylloquinone, and
4FE-4S electron acceptors. This model describes PsaA
only.
Length = 752
Score = 25.3 bits (55), Expect = 6.3
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 19 LIGSIVKELEDYGLCVVAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAMI 68
+I S L YGL + A F W A + R ++ EL+++++
Sbjct: 658 VIQSYGSSLSAYGLMFLGAHFIW-----AFSLMFLFSGRGYWQELIESIV 702
>gnl|CDD|152752 pfam12317, IFT46_B_C, Intraflagellar transport complex B protein
46 C terminal. This family of proteins is found in
eukaryotes. Proteins in this family are typically
between 298 and 416 amino acids in length. IFT46 is a
flagellar protein of complex B. Like all IFT proteins,
it is required for transport of IFT particles into the
flagella.
Length = 214
Score = 24.6 bits (54), Expect = 9.5
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 35 VAAKFCWMNRKQAEDFYLIHKDRPFFPELVQAM 67
+ F ++ R + + L K +PF P+ + A+
Sbjct: 17 IKELFQYITRYKPQTVELPTKLKPFIPDYIPAV 49
>gnl|CDD|181686 PRK09191, PRK09191, two-component response regulator; Provisional.
Length = 261
Score = 24.4 bits (54), Expect = 9.8
Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 51 YLIHKDRPFFPELVQAMISGPVFLQ 75
+LI K PF P+ V+A IS +F Q
Sbjct: 233 FLITK--PFQPDTVKAAISQALFFQ 255
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 0.137 0.402
Gapped
Lambda K H
0.267 0.0666 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,283,046
Number of extensions: 132849
Number of successful extensions: 285
Number of sequences better than 10.0: 1
Number of HSP's gapped: 281
Number of HSP's successfully gapped: 32
Length of query: 140
Length of database: 5,994,473
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,179,401
Effective search space: 234046456
Effective search space used: 234046456
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: 52 (23.9 bits)