RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy5289
(813 letters)
>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the
C-terminal domain {Escherichia coli [TaxId: 562]}
Length = 234
Score = 187 bits (475), Expect = 6e-55
Identities = 95/234 (40%), Positives = 140/234 (59%), Gaps = 3/234 (1%)
Query: 509 YVRPCMKPMGTGSLVLNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTY 568
Y P + + + RHP+VE +I N + S + ++TGPNMGGKSTY
Sbjct: 1 YTCPTFID--KPGIRITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTY 57
Query: 569 IRSIGVSVFLAQIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKK 628
+R + +A IG +VP I +D+IFTRVGAAD G STFM+EM ETA ++
Sbjct: 58 MRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHN 117
Query: 629 CTENSLVIIDELGRGTSTFDGFGMACSIARELASHRQPFTLFATHFHEIALLSRVIPTFR 688
TE SLV++DE+GRGTST+DG +A + A LA+ + TLFATH+ E+ L +
Sbjct: 118 ATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVA 177
Query: 689 NVQVSALEQEDNLVLLYQVKPGSCVKSYGVHCAKMAGYPEDMLEQARDLMKEYE 742
NV + ALE D + ++ V+ G+ KSYG+ A +AG P++++++AR ++E E
Sbjct: 178 NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVAALAGVPKEVIKRARQKLRELE 231
>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the
C-terminal domain {Thermus aquaticus [TaxId: 271]}
Length = 224
Score = 169 bits (429), Expect = 9e-49
Identities = 94/234 (40%), Positives = 137/234 (58%), Gaps = 12/234 (5%)
Query: 509 YVRPCMKPMGTGSLVLNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTY 568
YVRP L + RHP+VE + ++PND+ L+TGPNM GKST+
Sbjct: 1 YVRPRF----GDRLQIRAGRHPVVERR--TEFVPNDLEMAH---ELVLITGPNMAGKSTF 51
Query: 569 IRSIGVSVFLAQIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKK 628
+R + LAQ+G FVP + A + + D I+TR+GA+D G STFM+EM+E A ++K+
Sbjct: 52 LRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKE 111
Query: 629 CTENSLVIIDELGRGTSTFDGFGMACSIARELASHRQPFTLFATHFHEIALLSRVIPTFR 688
TENSLV++DE+GRGTS+ DG +A ++A L R +F A +P +
Sbjct: 112 ATENSLVLLDEVGRGTSSLDGVAIATAVAEALHERRAYTLFATHYFELTA---LGLPRLK 168
Query: 689 NVQVSALEQEDNLVLLYQVKPGSCVKSYGVHCAKMAGYPEDMLEQARDLMKEYE 742
N+ V+A E+ LV +QV PG KSYGV A MAG P++++ +AR L++
Sbjct: 169 NLHVAAREEAGGLVFYHQVLPGPASKSYGVEVAAMAGLPKEVVARARALLQAMA 222
>d1ewqa1 a.113.1.1 (A:267-541) DNA repair protein MutS, domain III
{Thermus aquaticus [TaxId: 271]}
Length = 275
Score = 113 bits (284), Expect = 1e-28
Identities = 50/269 (18%), Positives = 102/269 (37%), Gaps = 20/269 (7%)
Query: 253 DSLLGILDRCRTPQGHRLLAQWMKQPLKDLDAIVERHAAVNILVNNTEARMNLHEYALRG 312
D+L +LD RT G RLL W++ PL D + R V V R + L
Sbjct: 4 DTLFSVLDETRTAPGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREGALREGVRRL-LYR 62
Query: 313 LPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTILSS--LQ 370
L D++ LA R+ +A KD + + LP+L ++L V + S L L + ++
Sbjct: 63 LADLERLATRLELGRASPKDLGALRRSLQILPELRALLGEEVGLPDLSPLKEELEAALVE 122
Query: 371 SLKMMDRK--------DAVMDKMKEYLESTARRLNLVADKTIKLE---------NSPQGF 413
+ + D +D ++ + ++ + N+ G+
Sbjct: 123 DPPLKVSEGGLIREGYDPDLDALRAAHREGVAYFLELEERERERTGIPTLKVGYNAVFGY 182
Query: 414 AYRITMKLNNSIDDRYTILDTVRGGVRFQDDRLATANTQYQAIQREYETHQQSIVEEVIG 473
+T + Y + T++ R+ + + ++ ++ + EV
Sbjct: 183 YLEVTRPYYERVPKEYRPVQTLKDRQRYTLPEMKEKEREVYRLEALIRRREEEVFLEVRE 242
Query: 474 ISAGYTQTLNQLSDVLAQFDVLVSFSIAS 502
+ + L + + +LA+ DV + + +
Sbjct: 243 RAKRQAEALREAARILAELDVYAALAEVA 271
>d1wb9a1 a.113.1.1 (A:270-566) DNA repair protein MutS, domain III
{Escherichia coli [TaxId: 562]}
Length = 297
Score = 104 bits (260), Expect = 3e-25
Identities = 49/285 (17%), Positives = 111/285 (38%), Gaps = 32/285 (11%)
Query: 246 STSAQTYDSLLGILDRCRTPQGHRLLAQWMKQPLKDLDAIVERHAAVNILVNNTEARMNL 305
+ + ++L +LD TP G R+L +W+ P++D ++ER + L + T +
Sbjct: 13 NLAGGAENTLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGALQDFTAGLQPV 72
Query: 306 HEYALRGLPDMQSLAMRIGRKKAGLKDCYRVYEGVSQLPKLISILESLVQNVEASNLNTI 365
LR + D++ + R+ + A +D R+ QLP+L + LE++ + +
Sbjct: 73 ----LRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPVQALREKM 128
Query: 366 LSSLQSLKMMDR-----------------------KDAVMDKMKEYLESTARRLNLVADK 402
+ +++R D + R ++
Sbjct: 129 GEFAELRDLLERAIIDTPPVLVRDGGVIASGYNEELDEWRALADGATDYLERLEVRERER 188
Query: 403 ----TIKLENSPQ-GFAYRITMKLNNSIDDRYTILDTVRGGVRFQDDRLATANTQYQAIQ 457
T+K+ + G+ +I+ ++ Y T++ R+ L + +
Sbjct: 189 TGLDTLKVGFNAVHGYYIQISRGQSHLAPINYMRRQTLKNAERYIIPELKEYEDKVLTSK 248
Query: 458 REYETHQQSIVEEVIGISAGYTQTLNQLSDVLAQFDVLVSFSIAS 502
+ ++ + EE+ + + + L Q + LA+ DVLV+ + +
Sbjct: 249 GKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVNLAERA 293
>d1ewqa3 c.55.6.1 (A:121-266) DNA repair protein MutS, domain II
{Thermus aquaticus [TaxId: 271]}
Length = 146
Score = 32.7 bits (74), Expect = 0.077
Identities = 11/53 (20%), Positives = 21/53 (39%), Gaps = 3/53 (5%)
Query: 84 VLTNTVGVAIVDLDTKKFYMGEIPDDDYYSNLEAIIVQKSPKECLLPAEYLND 136
+ G+A +D+ T +F + + + + P E LL E L +
Sbjct: 18 ATGDGWGLAFLDVSTGEFKGTVLKSKSALYDE---LFRHRPAEVLLAPELLEN 67
>g1ii8.1 c.37.1.12 (A:,B:) Rad50 {Archaeon Pyrococcus furiosus
[TaxId: 2261]}
Length = 369
Score = 31.0 bits (68), Expect = 0.67
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 532 VELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 577
V ++ S+ V FK G NL+ G N GKS+ + +I V ++
Sbjct: 6 VTVKNFRSHSDTVVEFKEG---INLIIGQNGSGKSSLLDAILVGLY 48
>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId:
2336]}
Length = 308
Score = 30.0 bits (66), Expect = 1.1
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 532 VELQGGVSYI-PNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIG 573
+ L+G S+ P+ + F + GPN GKS I +I
Sbjct: 6 LYLKGFKSFGRPSLIGFSDR---VTAIVGPNGSGKSNIIDAIK 45
>g1f2t.1 c.37.1.12 (A:,B:) Rad50 {Archaeon Pyrococcus furiosus
[TaxId: 2261]}
Length = 292
Score = 29.7 bits (65), Expect = 1.2
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 532 VELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSI 572
V ++ S+ V FK G NL+ G N GKS+ + +I
Sbjct: 6 VTVKNFRSHSDTVVEFKEGI---NLIIGQNGSGKSSLLDAI 43
>d1zhva2 d.58.18.8 (A:62-127) Hypothetical protein Atu0741
{Agrobacterium tumefaciens [TaxId: 358]}
Length = 66
Score = 27.3 bits (61), Expect = 1.3
Identities = 8/37 (21%), Positives = 16/37 (43%)
Query: 643 GTSTFDGFGMACSIARELASHRQPFTLFATHFHEIAL 679
G FD G+ S+ L+++ + +T + L
Sbjct: 9 GPFAFDETGIVLSVISPLSTNGIGIFVVSTFDGDHLL 45
>d1pn0a3 d.16.1.2 (A:241-341) Phenol hydroxylase {Soil-living yeast
(Trichosporon cutaneum) [TaxId: 5554]}
Length = 101
Score = 27.5 bits (61), Expect = 2.2
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 4/52 (7%)
Query: 697 QEDNLVLLYQVKPGSCVKSYGVHCAKMAGYPEDMLEQARDLMKEYEYSLDTK 748
+E+NLV Y K V + PE ++ A+ + Y+ D +
Sbjct: 41 RENNLVRFYVQLQARAEKGGRV--DRTKFTPEVVIANAKKIFH--PYTFDVQ 88
>g1xew.1 c.37.1.12 (X:,Y:) Smc head domain {Pyrococcus furiosus
[TaxId: 2261]}
Length = 329
Score = 28.8 bits (63), Expect = 2.5
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 532 VELQGGVSYI--PNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIG 573
+EL+G SY + F G F + G N GKS +I
Sbjct: 7 LELKGFKSYGNKKVVIPFSKG---FTAIVGANGSGKSNIGDAIL 47
>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast
(Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 427
Score = 28.9 bits (63), Expect = 2.9
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 532 VELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSI 572
+EL SY GE +F + GPN GKS + +I
Sbjct: 6 LELSNFKSYR-GVTKVGFGESNFTSIIGPNGSGKSNMMDAI 45
>d1zvpa2 d.58.18.9 (A:68-131) Hypothetical protein VC0802 {Vibrio
cholerae [TaxId: 666]}
Length = 64
Score = 25.8 bits (57), Expect = 4.9
Identities = 8/31 (25%), Positives = 16/31 (51%)
Query: 645 STFDGFGMACSIARELASHRQPFTLFATHFH 675
S+ + G+ + A +LA H + A ++H
Sbjct: 12 SSLEAVGLTAAFATKLAEHGISANVIAGYYH 42
>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter,
ATP-binding protein {Methanosarcina acetivorans [TaxId:
2214]}
Length = 229
Score = 27.3 bits (60), Expect = 6.8
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 9/67 (13%)
Query: 543 NDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFVPCDSATISVVDQIFTRV 602
+++ K + ++ GP GK+ ++ I F DS I + + T +
Sbjct: 17 DNLSLKVESGEYFVILGPTGAGKTLFLEL---------IAGFHVPDSGRILLDGKDVTDL 67
Query: 603 GAADSQY 609
Sbjct: 68 SPEKHDI 74
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 0.134 0.381
Gapped
Lambda K H
0.267 0.0435 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,839,921
Number of extensions: 129541
Number of successful extensions: 425
Number of sequences better than 10.0: 1
Number of HSP's gapped: 419
Number of HSP's successfully gapped: 18
Length of query: 813
Length of database: 2,407,596
Length adjustment: 93
Effective length of query: 720
Effective length of database: 1,130,706
Effective search space: 814108320
Effective search space used: 814108320
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: 57 (26.5 bits)