RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780131|ref|YP_003064544.1| DNA ligase, NAD-dependent
[Candidatus Liberibacter asiaticus str. psy62]
(119 letters)
>d1ta8a_ d.142.2.2 (A:) Adenylation domain of NAD+-dependent DNA
ligase {Enterococcus faecalis [TaxId: 1351]}
Length = 313
Score = 51.1 bits (121), Expect = 2e-08
Identities = 19/64 (29%), Positives = 29/64 (45%)
Query: 54 LSKGEAMIEVEYLVKIALHHQKWYYRLDDPLFTDGLYDRVSERLDALQEQFPELFDEDHP 113
L+ A + L K + YY D P D +YDR+ + L ++ +FP+L D P
Sbjct: 2 LTLTAATTRAQELRKQLNQYSHEYYVKDQPSVEDYVYDRLYKELVDIETEFPDLITPDSP 61
Query: 114 WNTV 117
V
Sbjct: 62 TQRV 65
>d1dgsa3 d.142.2.2 (A:1-314) Adenylation domain of NAD+-dependent
DNA ligase {Thermus filiformis [TaxId: 276]}
Length = 314
Score = 50.7 bits (120), Expect = 3e-08
Identities = 21/60 (35%), Positives = 31/60 (51%)
Query: 54 LSKGEAMIEVEYLVKIALHHQKWYYRLDDPLFTDGLYDRVSERLDALQEQFPELFDEDHP 113
+++ EA + L + +H YY L DP +D YDR+ L L+E+FPE D P
Sbjct: 1 MTREEARRRINELRDLIRYHNYRYYVLADPEISDAEYDRLLRELKELEERFPEFKSPDSP 60
>d1b04a_ d.142.2.2 (A:) Adenylation domain of NAD+-dependent DNA
ligase {Bacillus stearothermophilus [TaxId: 1422]}
Length = 312
Score = 49.6 bits (117), Expect = 8e-08
Identities = 21/64 (32%), Positives = 32/64 (50%)
Query: 56 KGEAMIEVEYLVKIALHHQKWYYRLDDPLFTDGLYDRVSERLDALQEQFPELFDEDHPWN 115
+ +A L ++ + YY LD P D YDR+ + L A++EQ+PEL D P
Sbjct: 2 RQQAERRAAELRELLNRYGYEYYVLDRPSVPDAEYDRLMQELIAIEEQYPELKTSDSPTQ 61
Query: 116 TVGY 119
+G
Sbjct: 62 RIGG 65
>d1r6na_ b.91.1.1 (A:) E2 regulatory, transactivation domain {Human
papillomavirus type 11 [TaxId: 10580]}
Length = 196
Score = 26.9 bits (60), Expect = 0.45
Identities = 9/21 (42%), Positives = 17/21 (80%)
Query: 91 DRVSERLDALQEQFPELFDED 111
+ +++RLDA Q+Q EL++E+
Sbjct: 2 EAIAKRLDACQDQLLELYEEN 22
>d1tueb_ b.91.1.1 (B:) E2 regulatory, transactivation domain {Human
papillomavirus type 18 [TaxId: 333761]}
Length = 194
Score = 26.9 bits (60), Expect = 0.46
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 91 DRVSERLDALQEQFPELFDED 111
+ +SERL ALQ++ + ++ D
Sbjct: 7 ETLSERLSALQDKIIDHYEND 27
>d2nnua1 b.91.1.1 (A:1-200) E2 regulatory, transactivation domain
{Human papillomavirus type 16 [TaxId: 333760]}
Length = 200
Score = 26.9 bits (60), Expect = 0.54
Identities = 4/21 (19%), Positives = 12/21 (57%)
Query: 91 DRVSERLDALQEQFPELFDED 111
+ + +RL+ Q++ ++ D
Sbjct: 2 ETLCQRLNVCQDKILTHYEND 22
>d1evsa_ a.26.1.1 (A:) Oncostatin M {Human (Homo sapiens) [TaxId:
9606]}
Length = 184
Score = 25.0 bits (54), Expect = 1.7
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 79 RLDDPLFTDGLY---DRVSERLDALQEQFPELFD 109
L F L V RL L+++ P+ D
Sbjct: 61 GLGRRGFLQTLNATLGCVLHRLADLEQRLPKAQD 94
>d2hk6a1 c.92.1.1 (A:2-310) Ferrochelatase {Bacillus subtilis
[TaxId: 1423]}
Length = 309
Score = 24.7 bits (53), Expect = 2.4
Identities = 10/42 (23%), Positives = 14/42 (33%), Gaps = 5/42 (11%)
Query: 61 IEVEYLVKIALHHQKWYYRL----DDPLFTDGLYDRVSERLD 98
+ E + YYR P F D L V ++L
Sbjct: 268 NDYEC-KVVTDDIGASYYRPEMPNAKPEFIDALATVVLKKLG 308
>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator
PA4135 {Pseudomonas aeruginosa [TaxId: 287]}
Length = 136
Score = 24.6 bits (53), Expect = 2.8
Identities = 17/99 (17%), Positives = 37/99 (37%), Gaps = 5/99 (5%)
Query: 15 NEHNITPAQWKKLLTLEAKFLPNKRALESWLDKAKKVTS--LSKGEAMIEVEYLVKIALH 72
N+H +T QW+ + L + L + + + L++ E V K
Sbjct: 24 NQHGLTEQQWRVIRILRQQGEMESYQLANQACILRPSMTGVLARLERDGIVRR-WKAPKD 82
Query: 73 HQKWYYRLDDPLFTDGLYDRVSERLDALQEQFPELFDED 111
++ Y L + + +S ++ ++ E F E+
Sbjct: 83 QRRVYVNLTEK--GQQCFVSMSGDMEKNYQRIQERFGEE 119
>d2fbka1 a.4.5.28 (A:8-179) Transcriptional regulator DR1159
{Deinococcus radiodurans [TaxId: 1299]}
Length = 172
Score = 23.9 bits (51), Expect = 3.9
Identities = 15/111 (13%), Positives = 30/111 (27%), Gaps = 10/111 (9%)
Query: 4 FDRVFRSSKFENEHNITPAQWKKLLTLEAKFLPNKRALESWLDKAKKVTSLSKGEAMIEV 63
+R + + A W LLTL + P + + L ++ S ++ +
Sbjct: 51 IERTYA------ASGLNAAGWDLLLTL-YRSAPPEGLRPTELSALAAISGPSTSNRIVRL 103
Query: 64 EYLVKIALHHQKWYYRLDDPLFTDG---LYDRVSERLDALQEQFPELFDED 111
I + R T L + A ++
Sbjct: 104 LEKGLIERREDERDRRSASIRLTPQGRALVTHLLPAHLATTQRVLAPLSAQ 154
>d1dvoa_ a.136.1.1 (A:) Repressor of bacterial conjugation FinO
{Escherichia coli [TaxId: 562]}
Length = 152
Score = 23.7 bits (51), Expect = 4.7
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 91 DRVSERLDALQEQFPELFDEDHP 113
+ E ++ L+ +P LFD D P
Sbjct: 39 PTLDEAVNTLKPWWPGLFDGDTP 61
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.319 0.136 0.420
Gapped
Lambda K H
0.267 0.0568 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 487,864
Number of extensions: 21173
Number of successful extensions: 81
Number of sequences better than 10.0: 1
Number of HSP's gapped: 80
Number of HSP's successfully gapped: 28
Length of query: 119
Length of database: 2,407,596
Length adjustment: 74
Effective length of query: 45
Effective length of database: 1,391,576
Effective search space: 62620920
Effective search space used: 62620920
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: 47 (22.2 bits)