RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780762|ref|YP_003065175.1| recombination protein RecR
[Candidatus Liberibacter asiaticus str. psy62]
(201 letters)
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc
finger, toprim, walker B ATP binding motif; 2.50A
{Deinococcus radiodurans} (A:67-175)
Length = 109
Score = 156 bits (396), Expect = 2e-39
Identities = 47/111 (42%), Positives = 68/111 (61%), Gaps = 2/111 (1%)
Query: 70 DPCAICIDQQRDASVIIVVEDVADLWALERSKAVNALYHVLGGSLSPLDRIGPEDIGIQS 129
+ C +C D RD I VVE+ D+ ALERS LYHVL G LSP++ +GP+ + I+
Sbjct: 1 EKCDVCADPSRDQRTICVVEEPGDVIALERSGEYRGLYHVLHGVLSPMNGVGPDKLHIKP 60
Query: 130 LIERIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMG 180
L+ R V + E+I A T+EG TA Y+ L+ + I+R+AYG+P+G
Sbjct: 61 LLPR--VGQGMEVILATGTTVEGDATALYLQRLLEPLGAAISRIAYGVPVG 109
>1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc
finger, toprim, walker B ATP binding motif; 2.50A
{Deinococcus radiodurans} (A:1-66)
Length = 66
Score = 74.0 bits (182), Expect = 1e-14
Identities = 20/59 (33%), Positives = 35/59 (59%)
Query: 8 KEIENLIKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNV 66
+ +LI+ L+R+PG GP+SA+R HL ++ + + LA A+ + +C IC N+
Sbjct: 5 PSLVSLIRELSRLPGIGPKSAQRLAFHLFEQPREDIERLASALLEAKRDLHVCPICFNI 63
>1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET:
DNA; 1.67A {Escherichia coli} (X:1-32,X:89-156)
Length = 100
Score = 32.0 bits (73), Expect = 0.061
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 135 EVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRL 173
+K + A EG+ A ++ + + G D + +R+
Sbjct: 43 LAEKADHIYLATDLDREGEAIAWHLREVIGGDDARYSRV 81
>3e8x_A Putative NAD-dependent epimerase/dehydratase; structural
genomics, APC7755, NADP, PSI-2, protein structure
initiative; HET: MSE NAP; 2.10A {Bacillus halodurans}
(A:)
Length = 236
Score = 30.9 bits (68), Expect = 0.12
Identities = 9/79 (11%), Positives = 19/79 (24%), Gaps = 10/79 (12%)
Query: 47 AEAMANIYNKVCLCSICGNVDTTDPCAICI-----DQQRDASVIIVVEDVAD--LWALER 99
A+ + G + + + I DVA +++
Sbjct: 154 ADDELKRSSLDYTIVRPGPLSNEESTGKVTVSPHFSEITR---SITRHDVAKVIAELVDQ 210
Query: 100 SKAVNALYHVLGGSLSPLD 118
+ + VL G
Sbjct: 211 QHTIGKTFEVLNGDTPIAK 229
>2hy7_A Glucuronosyltransferase GUMK; glycosyltransferases, xanthan,
membrane-associated proteins; 1.90A {Xanthomonas
campestris} PDB: 2q6v_A* 3cv3_A* 3cuy_A*
(A:1-212,A:358-406)
Length = 261
Score = 27.6 bits (61), Expect = 1.1
Identities = 26/117 (22%), Positives = 41/117 (35%), Gaps = 27/117 (23%)
Query: 30 RATLHLVKKKEQLLGPLAEAMANIYNKVCLCSICGNVDTTDPCAICIDQQRDASVIIVVE 89
R T+H + L P+ +AM Y P +D R++ VI+
Sbjct: 86 RTTVHPFNTRRSWLRPVEDAMFRWYAAH-------------PPKQLLDWMRESDVIVFES 132
Query: 90 DVADLWALERSKAVNA----LYHVLGGSLSPLDRIGPEDIGIQSLIERIEVKKIREL 142
+A + E +K VN +Y D + I + S IER + L
Sbjct: 133 GIAVAFI-ELAKRVNPAAKLVYRA-------SDGL--STINVASYIEREFDRVAPTL 179
>1am7_A Lysozyme; glycosidase, transglycosylase, evolution; HET:
TRN; 2.30A {Bacteriophage lambda} (A:1-26,A:85-158)
Length = 100
Score = 27.5 bits (61), Expect = 1.5
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 4/38 (10%)
Query: 22 GFGPRSARRATLHLVKKKEQL----LGPLAEAMANIYN 55
F P+S L +K++ L G + +A+ N
Sbjct: 27 DFSPKSQDAVALQQIKERGALPMIDRGDIRQAIDRCSN 64
>3dhn_A NAD-dependent epimerase/dehydratase; reductase, PF01370,
Q89Z24_bactn, NESG, BTR310, structural genomics, PSI-2;
2.00A {Bacteroides thetaiotaomicron} (A:)
Length = 227
Score = 27.2 bits (58), Expect = 1.6
Identities = 8/30 (26%), Positives = 11/30 (36%), Gaps = 2/30 (6%)
Query: 86 IVVEDVAD--LWALERSKAVNALYHVLGGS 113
I VED A + LE K + +
Sbjct: 192 ISVEDYAAAXIDELEHPKHHQERFTIGYLE 221
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
(A:)
Length = 81
Score = 27.4 bits (60), Expect = 1.6
Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 60 CSICGNVDTTDPCAICIDQQRDASVIIVV 88
C+IC D C C + + ++V
Sbjct: 18 CAICRV-QVMDACLRCQAENKQEDCVVVW 45
>1cuk_A RUVA protein; DNA repair, SOS response, DNA-binding, DNA
recombination, helicase; 1.90A {Escherichia coli}
(A:66-144)
Length = 79
Score = 26.9 bits (60), Expect = 1.9
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 14 IKILARIPGFGPRSARRATLHLVKK 38
+ L ++PG G ++A R + + +
Sbjct: 42 VGALVKLPGIGKKTAERLIVEMKDR 66
>3h2s_A Putative NADH-flavin reductase; Q03B84, NESG, LCR19,
structural genomics, PSI-2, protein structure
initiative; HET: NDP; 1.78A {Lactobacillus casei atcc
334} (A:)
Length = 224
Score = 26.4 bits (56), Expect = 2.7
Identities = 7/38 (18%), Positives = 11/38 (28%), Gaps = 5/38 (13%)
Query: 77 DQQRDASVIIVVEDVAD--LWALERSKAVNALYHVLGG 112
+ + I + A L LE A+ V
Sbjct: 181 EDGQS---HITTGNXALAILDQLEHPTAIRDRIVVRDA 215
>2ztd_A Holliday junction ATP-dependent DNA helicase RUVA;
recombination, branch migration, DNA binding,
oligomerization, acidic PIN; 2.40A {Mycobacterium
tuberculosis} PDB: 2ztc_A 2zte_A 2h5x_A 1bvs_A
(A:80-154)
Length = 75
Score = 26.5 bits (59), Expect = 2.7
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 14 IKILARIPGFGPRSARRATLHLVKK 38
+ L R+PG G R A R L L K
Sbjct: 43 VAALTRVPGIGKRGAERMVLELRDK 67
>2fmp_A DNA polymerase beta; nucleotidyl transferase,
transferase/DNA complex; HET: DNA DOC DCT; 1.65A {Homo
sapiens} (A:1-119)
Length = 119
Score = 25.9 bits (57), Expect = 3.9
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 4 KITGKEIENLIKILARIPGFGPRSARR 30
KI + + I L R+ G GP +AR+
Sbjct: 87 KIRQDDTSSSINFLTRVSGIGPSAARK 113
>1ixr_A Holliday junction DNA helicase RUVA; heterooligomeric
complex, octameric RUVA, AAA-ATPase domain, complex with
nucleotide, hydrolase; HET: ANP; 3.30A {Thermus
thermophilus} (A:)
Length = 191
Score = 25.3 bits (55), Expect = 6.5
Identities = 10/44 (22%), Positives = 15/44 (34%)
Query: 14 IKILARIPGFGPRSARRATLHLVKKKEQLLGPLAEAMANIYNKV 57
++L G G R A R L L K L + + +
Sbjct: 106 ARLLTSASGVGRRLAERIALELKGKVPPHLLAGEKVESEAAEEA 149
>1vk1_A Conserved hypothetical protein; reductive methylation,
dimethyl lysine, structural genomics, PSI, protein
structure initiative; HET: MLY; 1.20A {Pyrococcus
furiosus} (A:94-227)
Length = 134
Score = 25.2 bits (55), Expect = 6.8
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 133 RIEVKKIRELIFAISATIEGQTTAHYIMDKLKGIDVKITRLAYGIPMGS-------ELDY 185
I I E FAI +E Q ++D++ +I + YG+ + E+DY
Sbjct: 45 EIAFALIGEKSFAIPGGLEEQXKVSKVLDEMD-QAXEIELVYYGLKEDAKADMEKGEIDY 103
Query: 186 L 186
+
Sbjct: 104 V 104
>2ihm_A POL MU, DNA polymerase MU; helix-turn-helix, transferase/DNA
complex; HET: DNA D3T; 2.40A {Mus musculus} (A:1-129)
Length = 129
Score = 24.4 bits (53), Expect = 9.9
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 3 KKITGKEIENLIKILARIPGFGPRSARR 30
K++ E +K+ ++ G G ++A R
Sbjct: 90 KQVRCSERYQTMKLFTQVFGVGVKTANR 117
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.322 0.139 0.398
Gapped
Lambda K H
0.267 0.0355 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,534,440
Number of extensions: 68152
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 24
Length of query: 201
Length of database: 4,956,049
Length adjustment: 84
Effective length of query: 117
Effective length of database: 2,116,429
Effective search space: 247622193
Effective search space used: 247622193
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: 52 (24.8 bits)