RPS-BLAST 2.2.22 [Sep-27-2009]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= gi|254780853|ref|YP_003065266.1| NADH dehydrogenase subunit B
[Candidatus Liberibacter asiaticus str. psy62]
(185 letters)
>d2fug61 e.19.1.2 (6:15-175) NAD-quinone oxidoreductase chain 6,
Nqo6 {Thermus thermophilus [TaxId: 274]}
Length = 161
Score = 209 bits (534), Expect = 9e-56
Identities = 83/145 (57%), Positives = 113/145 (77%), Gaps = 2/145 (1%)
Query: 36 KGFLVTSVDQLVTWARTGSLMWMTFGLACCAVEMMQASMPRYDLERFGF-APRASPRQSD 94
+G L T++++LV W R+ SL TFGLACCA+EMM ++ R DL RFG RASPRQ+D
Sbjct: 3 EGILFTTLEKLVAWGRSNSLWPATFGLACCAIEMMASTDARNDLARFGSEVFRASPRQAD 62
Query: 95 VMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVDI 154
VMIVAG L+ KMA +RRV++QMP+P++VISMG+CA+ GG ++ +Y++V+ D +VPVD+
Sbjct: 63 VMIVAGRLSKKMAPVMRRVWEQMPDPKWVISMGACASSGGMFN-NYAIVQNVDSVVPVDV 121
Query: 155 YVPGCPPTAEALIYGILLLQKKIRR 179
YVPGCPP EALIY ++ LQKK+R
Sbjct: 122 YVPGCPPRPEALIYAVMQLQKKVRG 146
>d1wuis1 e.19.1.1 (S:1-267) Nickel-iron hydrogenase, small subunit
{Desulfovibrio vulgaris [TaxId: 881]}
Length = 267
Score = 76.9 bits (189), Expect = 9e-16
Identities = 24/155 (15%), Positives = 50/155 (32%), Gaps = 37/155 (23%)
Query: 54 SLMWMTF-GLACCAVEMMQASMPRYDLERFG-----FAPRAS----------------PR 91
S++++ C+ +++A P D +
Sbjct: 8 SVVYLHNAECTGCSESVLRAFEPYIDTLILDTLSLDYHETIMAAAGDAAEAALEQAVNSP 67
Query: 92 QSDVMIVAGTLTNKMA---------SALRRVYDQMPEPRYVISMGSCANGGGYYH--YSY 140
+ +V G + + L +P+ + VI+ G+CA GG +
Sbjct: 68 HGFIAVVEGGIPTAANGIYGKVANHTMLDICSRILPKAQAVIAYGTCATFGGVQAAKPNP 127
Query: 141 SVVRGCDRIVP----VDIYVPGCPPTAEALIYGIL 171
+ +G + + I + GCPP L+ I+
Sbjct: 128 TGAKGVNDALKHLGVKAINIAGCPPNPYNLVGTIV 162
>d1yq9a1 e.19.1.1 (A:4-264) Nickel-iron hydrogenase, small subunit
{Desulfovibrio gigas [TaxId: 879]}
Length = 261
Score = 73.1 bits (179), Expect = 1e-14
Identities = 23/156 (14%), Positives = 51/156 (32%), Gaps = 37/156 (23%)
Query: 54 SLMWMTFGLAC--CAVEMMQASMPRYDLERFGF-------------------APRASPRQ 92
S++++ C C+ +++ P D A + +
Sbjct: 5 SVVYLHNA-ECTGCSESVLRTVDPYVDELILDVISMDYHETLMAGAGHAVEEALHEAIKG 63
Query: 93 SDVMIVAGTLTNKMA---------SALRRVYDQMPEPRYVISMGSCANGGGYY--HYSYS 141
V ++ G + + + P+ + VI++G+CA GG + +
Sbjct: 64 DFVCVIEGGIPMGDGGYWGKVGGRNMYDICAEVAPKAKAVIAIGTCATYGGVQAAKPNPT 123
Query: 142 VVRGCDRIVP----VDIYVPGCPPTAEALIYGILLL 173
G + + I + GCPP + ++ L
Sbjct: 124 GTVGVNEALGKLGVKAINIAGCPPNPMNFVGTVVHL 159
>d1cc1s_ e.19.1.1 (S:) Nickel-iron hydrogenase, small subunit
{Desulfomicrobium baculatum [TaxId: 899]}
Length = 278
Score = 66.6 bits (162), Expect = 1e-12
Identities = 16/131 (12%), Positives = 41/131 (31%), Gaps = 27/131 (20%)
Query: 78 DLERFGFAPRASPRQSDVMIVAGTLTNKM-------------------ASALRRVYDQMP 118
+ + ++V G + + + + D P
Sbjct: 51 MALAHMYEIAEKFNGNFFLLVEGAIPTAKEGRYCIVGETLDAKAHHHEVTMMELIRDLAP 110
Query: 119 EPRYVISMGSCANGGGYYHYSYSV--------VRGCDRIVPVDIYVPGCPPTAEALIYGI 170
+ +++G+C+ GG +V ++I + + VPGCPP + ++ +
Sbjct: 111 KSLATVAVGTCSAYGGIPAAEGNVTGSKSVRDFFADEKIEKLLVNVPGCPPHPDWMVGTL 170
Query: 171 LLLQKKIRRVG 181
+ +
Sbjct: 171 VAAWSHVLNPT 181
>d1frfs_ e.19.1.1 (S:) Nickel-iron hydrogenase, small subunit
{Desulfovibrio fructosovorans [TaxId: 878]}
Length = 261
Score = 66.1 bits (161), Expect = 2e-12
Identities = 23/152 (15%), Positives = 44/152 (28%), Gaps = 36/152 (23%)
Query: 54 SLMWMTFGLAC--CAVEMMQASMPRYDLERFG---------------------FAPRASP 90
S++W+ C C ++ P D
Sbjct: 5 SVVWLHNA-ECTGCTEAAIRTIKPYIDALILDTISLDYQETIMAAAGETSEAALHEALEG 63
Query: 91 RQSDVMIVAGTLTNKM---------ASALRRVYDQMPEPRYVISMGSCANGGGYYH--YS 139
+ ++V G L + + + +I +G+C+ GG +
Sbjct: 64 KDGYYLVVEGGLPTIDGGQWGMVAGHPMIETCKKAAAKAKGIICIGTCSPYGGVQKAKPN 123
Query: 140 YSVVRGCDRIVPVD-IYVPGCPPTAEALIYGI 170
S +G + V I +PGCPP + +
Sbjct: 124 PSQAKGVSEALGVKTINIPGCPPNPINFVGAV 155
>d1q59a_ f.1.4.1 (A:) Early antigen protein R {Epstein-Barr virus
[TaxId: 10376]}
Length = 172
Score = 27.3 bits (60), Expect = 0.86
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 10/58 (17%)
Query: 20 EKVDADFSRISSEITHKGFLVTSVDQLVTWARTGSLMWMTFGLACCAVEMMQASMPRY 77
E VD DF+ + EI H+G + R +L WM + + C S P Y
Sbjct: 77 EHVDLDFNSVFLEIFHRGD--------PSLGR--ALAWMAWCMHACRTLCCNQSTPYY 124
>d1kica_ c.70.1.1 (A:) Inosine-adenosine-guanosine preferring
nucleoside hydrolase {Trypanosoma vivax [TaxId: 5699]}
Length = 327
Score = 27.0 bits (59), Expect = 0.94
Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 87 RASPRQSDVMIVA-GTLTNKMASALRRVYDQMPE-PRYVISMGSCANGGGYYH 137
S V I G L+N +A + + ++ + MG + G
Sbjct: 126 MNSE--EKVTICVTGPLSN-VAWCIDKYGEKFTSKVEECVIMGGAVDVRGNVF 175
>d1m1la_ d.260.1.1 (A:) Suppressor of Fused, N-terminal domain
{Human (Homo sapiens) [TaxId: 9606]}
Length = 236
Score = 26.4 bits (58), Expect = 1.5
Identities = 8/27 (29%), Positives = 11/27 (40%)
Query: 108 SALRRVYDQMPEPRYVISMGSCANGGG 134
RR+Y P P V ++ GG
Sbjct: 13 GECRRLYPDQPNPLQVTAIVKYWLGGP 39
>d1m1na_ c.92.2.3 (A:) Nitrogenase iron-molybdenum protein, alpha
chain {Azotobacter vinelandii [TaxId: 354]}
Length = 477
Score = 26.5 bits (58), Expect = 1.6
Identities = 8/37 (21%), Positives = 13/37 (35%), Gaps = 1/37 (2%)
Query: 93 SDVMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSC 129
+ IV G K+A + V P + + C
Sbjct: 116 QEKDIVFGGD-KKLAKLIDEVETLFPLNKGISVQSEC 151
>d2masa_ c.70.1.1 (A:) Inosine-uridine nucleoside N-ribohydrolase,
IU-NH {Crithidia fasciculata [TaxId: 5656]}
Length = 313
Score = 25.9 bits (56), Expect = 1.9
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 95 VMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYHYS 139
++ G LTN +A A R + + V+ MG + G +
Sbjct: 121 TLVPTGGLTN-IAMAARLEPRIVDRVKEVVLMGGGYHEGNATSVA 164
>d1b93a_ c.24.1.2 (A:) Methylglyoxal synthase, MgsA {Escherichia
coli [TaxId: 562]}
Length = 148
Score = 24.5 bits (53), Expect = 6.1
Identities = 8/62 (12%), Positives = 18/62 (29%), Gaps = 3/62 (4%)
Query: 119 EPRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALIYGILLLQKKIR 178
+ +I N + +++R +I V TA+ +I
Sbjct: 82 KIDVLIFFWDPLNAVPHDPDVKALLRLATV---WNIPVATNVATADFIIQSPHFNDAVDI 138
Query: 179 RV 180
+
Sbjct: 139 LI 140
>d1yq9h1 e.18.1.1 (H:7-536) Nickel-iron hydrogenase, large subunit
{Desulfovibrio gigas [TaxId: 879]}
Length = 530
Score = 24.4 bits (52), Expect = 6.7
Identities = 17/136 (12%), Positives = 36/136 (26%), Gaps = 12/136 (8%)
Query: 27 SRISSEITHKGFLV-----TSVDQLVTWARTGSLMWMTFGLACCAVEMMQASMPR----Y 77
+ + H L + L + + E ++A +
Sbjct: 97 QYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALV 156
Query: 78 DLERFGFAPRASPRQSDVMIVAGTLTNKMASALRRVYDQMPEPRYVISMGSCANGGGYYH 137
+ + G A V + +A+A Y + + + G H
Sbjct: 157 ESGQLGIFTNAYFLGGHPAYVLPAEVDLIATAH---YLEALRVQVKAARAMAIFGAKNPH 213
Query: 138 YSYSVVRGCDRIVPVD 153
++VV GC +
Sbjct: 214 TQFTVVGGCTNYDSLR 229
>d1mx3a2 c.23.12.1 (A:27-125,A:319-352) Transcription corepressor
CtbP {Human (Homo sapiens), Ctbp1 [TaxId: 9606]}
Length = 133
Score = 23.8 bits (51), Expect = 9.3
Identities = 12/70 (17%), Positives = 23/70 (32%), Gaps = 9/70 (12%)
Query: 111 RRVYDQMPEPRYVISMGSCANGGGYYHYSYSVVRGCDRIVPVDIYVPGCP-PTAEALIYG 169
R ++ R ++ +GS + + C VP + +A I
Sbjct: 57 REDLEKFKALRIIVRIGSGFDNIDIKSAGDLGIAVC--------NVPAASVYSEQASIEM 108
Query: 170 ILLLQKKIRR 179
++IRR
Sbjct: 109 REEAAREIRR 118
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
0.323 0.136 0.417
Gapped
Lambda K H
0.267 0.0481 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 704,081
Number of extensions: 31518
Number of successful extensions: 88
Number of sequences better than 10.0: 1
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 18
Length of query: 185
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 105
Effective length of database: 1,309,196
Effective search space: 137465580
Effective search space used: 137465580
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.6 bits)