RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy555
(142 letters)
>1d0n_A Horse plasma gelsolin; mixed alpha-beta structure, actin-binding
protein, protein D packing, contractIle protein; 2.50A
{Equus caballus} SCOP: d.109.1.1 d.109.1.1 d.109.1.1
d.109.1.1 d.109.1.1 d.109.1.1 PDB: 2fgh_A* 3ffn_A
3ffk_A* 1rgi_G*
Length = 729
Score = 106 bits (265), Expect = 8e-28
Identities = 37/116 (31%), Positives = 52/116 (44%), Gaps = 1/116 (0%)
Query: 25 KRNQGKVSNLARLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSK 84
R + K + F CSN+ G F + E +F Q+DLA DD+M+LD +QVF+W+G
Sbjct: 602 PRLKDKKMDAHPPRLFACSNKIGRFVIEEVPGEFMQEDLATDDVMLLDTWDQVFVWVGKD 661
Query: 85 CSEVEVKLAYKSALVYIQHLRAKEPERPRKLFLTLKGKESRRFTKCFHAWSFHKKP 140
+ E A SA YI A R + + +G E F F W
Sbjct: 662 SQDEEKTEALTSAKRYIDTDPAHRD-RRTPITVVKQGFEPPSFVGWFLGWDDSYWS 716
Score = 54.9 bits (131), Expect = 6e-10
Identities = 28/102 (27%), Positives = 50/102 (49%), Gaps = 11/102 (10%)
Query: 40 FRCSNEKGYFTVSEKCTD--FCQDDLADDDMMILDNGE--QVFLWLGSKCSEVEVKLAYK 95
++ SN G VS + F Q L +D ILD+G+ ++F+W G + + E K A K
Sbjct: 248 YKVSNGAGPMVVSLVADENPFAQGALRSEDCFILDHGKDGKIFVWKGKQANMEERKAALK 307
Query: 96 SALVYIQHLRAKEPERPRKLFLT--LKGKESRRFTKCFHAWS 135
+A +I + + P++ ++ +G E+ F + F W
Sbjct: 308 TASDFISKM-----DYPKQTQVSVLPEGGETPLFRQFFKNWR 344
Score = 46.1 bits (108), Expect = 1e-06
Identities = 20/103 (19%), Positives = 35/103 (33%), Gaps = 4/103 (3%)
Query: 40 FRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYKSALV 99
R KG V + + D ILD G ++ W GSK + E A + +
Sbjct: 134 QRLLQVKGRRVVRATEVPVSWESFNNGDCFILDLGNNIYQWCGSKSNRFERLKATQVS-- 191
Query: 100 YIQHLRAKEPERPRKLFLTLKGKESRRFTKCFHAWSFHKKPPE 142
+ +R E ++ + +G E + + E
Sbjct: 192 --KGIRDNERSGRAQVSVFEEGAEPEAMLQVLGPKPTLPEATE 232
Score = 38.0 bits (87), Expect = 5e-04
Identities = 23/123 (18%), Positives = 39/123 (31%), Gaps = 14/123 (11%)
Query: 10 CWSKGTFQSYASSINKRNQGKVSNLARLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMM 69
+ Y ++ RLF R ++ G E L +D
Sbjct: 485 LFGGKPMIVYKGGTSREGGQTAPASTRLFQVR-ASSSGATRAVEIIPKAGA--LNSNDAF 541
Query: 70 ILDNGEQVFLWLGSKCSEVEVKLAYKSALVYIQHLRAKEPERPRKLFLTLKGKESRRFTK 129
+L +LW+G+ SE E A + + LRA+ + +G E F +
Sbjct: 542 VLKTPSAAYLWVGAGASEAEKTGAQELL----RVLRAQPVQ-------VAEGSEPDSFWE 590
Query: 130 CFH 132
Sbjct: 591 ALG 593
>3fg6_A Adseverin, scinderin; C-terminus of adseverin, actin capping,
actin-binding, cytos phosphoprotein, actin-binding
protein; 3.00A {Homo sapiens}
Length = 371
Score = 104 bits (259), Expect = 1e-27
Identities = 37/99 (37%), Positives = 57/99 (57%), Gaps = 1/99 (1%)
Query: 40 FRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYKSALV 99
+ CSN+ G F + E +F QDDLA+DD+M+LD EQ+F+W+G +EVE K + KSA +
Sbjct: 273 YGCSNKTGRFVIEEIPGEFTQDDLAEDDVMLLDAWEQIFIWIGKDANEVEKKESLKSAKM 332
Query: 100 YIQHLRAKEPERPRKLFLTLKGKESRRFTKCFHAWSFHK 138
Y++ + + + + +G E FT F W K
Sbjct: 333 YLETDPSGRD-KRTPIVIIKQGHEPPTFTGWFLGWDSSK 370
Score = 31.7 bits (71), Expect = 0.064
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 2/61 (3%)
Query: 65 DDDMMILDNGE-QVFLWLGSKCSEVEVKLAYKSA-LVYIQHLRAKEPERPRKLFLTLKGK 122
+D+ +L + ++W+G S+ E K A A ++ + LR +E E P + + +L GK
Sbjct: 193 SNDVFVLKLPQNSGYIWVGKGASQEEEKGAEYVASVLKCKTLRIQEGEEPEEFWNSLGGK 252
Query: 123 E 123
+
Sbjct: 253 K 253
>2fh1_A Gelsolin; calcium, contractIle protein; 1.55A {Homo sapiens} SCOP:
d.109.1.1 d.109.1.1 d.109.1.1 PDB: 1p8x_A 2fh2_A 2fh3_A
2fh4_A 1h1v_G* 1nph_A
Length = 344
Score = 102 bits (255), Expect = 3e-27
Identities = 40/121 (33%), Positives = 57/121 (47%), Gaps = 3/121 (2%)
Query: 14 GTFQSYASSINKRNQGKVSNLARLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDN 73
G +Y +S R + K + F CSN+ G F + E + Q+DLA DD+M+LD
Sbjct: 208 GGKAAYRTS--PRLKDKKMDAHPPRLFACSNKIGRFVIEEVPGELMQEDLATDDVMLLDT 265
Query: 74 GEQVFLWLGSKCSEVEVKLAYKSALVYIQHLRAKEPERPRKLFLTLKGKESRRFTKCFHA 133
+QVF+W+G E E A SA YI+ A R + + +G E F F
Sbjct: 266 WDQVFVWVGKDSQEEEKTEALTSAKRYIETDPANRD-RRTPITVVKQGFEPPSFVGWFLG 324
Query: 134 W 134
W
Sbjct: 325 W 325
Score = 37.1 bits (85), Expect = 0.001
Identities = 23/133 (17%), Positives = 41/133 (30%), Gaps = 14/133 (10%)
Query: 10 CWSKGTFQSYASSINKRNQGKVSNLARLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMM 69
+ Y ++ RLF R ++ V L +D
Sbjct: 100 LFGGKPMIIYKGGTSREGGQTAPASTRLFQVRANSAGATRAV---EVLPKAGALNSNDAF 156
Query: 70 ILDNGEQVFLWLGSKCSEVEVKLAYKSALVYIQHLRAKEPERPRKLFLTLKGKESRRFTK 129
+L +LW+G+ SE E A + + LRA+ + G E F +
Sbjct: 157 VLKTPSAAYLWVGTGASEAEKTGAQELL----RVLRAQPVQVAE-------GSEPDGFWE 205
Query: 130 CFHAWSFHKKPPE 142
+ ++ P
Sbjct: 206 ALGGKAAYRTSPR 218
>3fg7_A Villin-1; actin binding protein, gelsolin, actin capping,
actin-binding, calcium, cytoplasm, cytoskeleton,
structural protein; 2.00A {Homo sapiens}
Length = 398
Score = 100 bits (249), Expect = 5e-26
Identities = 36/102 (35%), Positives = 51/102 (50%), Gaps = 2/102 (1%)
Query: 40 FRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYKSALV 99
F CSN+ G F +E DF QDDL +DD+ +LD +QVF W+G +E E K A +A
Sbjct: 286 FECSNKTGRFLATE-IPDFNQDDLEEDDVFLLDVWDQVFFWIGKHANEEEKKAAATTAQE 344
Query: 100 YIQHLRAKEPERPRKLFLTLKGKESRRFTKCFHAWSFHKKPP 141
Y++ + + + +G E FT F AW K
Sbjct: 345 YLKTHPSGRDPE-TPIIVVKQGHEPPTFTGWFLAWDPFKWSG 385
Score = 41.0 bits (95), Expect = 4e-05
Identities = 21/99 (21%), Positives = 35/99 (35%), Gaps = 5/99 (5%)
Query: 36 RLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYK 95
RLF + + + L +D+ +L +LW G CS E ++A
Sbjct: 180 RLFQVQGTGANN---TKAFEVPARANFLNSNDVFVLKTQSCCYLWCGKGCSGDEREMAKM 236
Query: 96 SA--LVYIQHLRAKEPERPRKLFLTLKGKESRRFTKCFH 132
A + + E + P ++ L GK TK
Sbjct: 237 VADTISRTEKQVVVEGQEPANFWMALGGKAPYANTKRLQ 275
>1j72_A Macrophage capping protein; actin, human, CAP G, GCAP39, MBHL, GELS
structural protein; 2.50A {Homo sapiens} SCOP: d.109.1.1
d.109.1.1 d.109.1.1 PDB: 1jhw_A
Length = 347
Score = 62.6 bits (151), Expect = 1e-12
Identities = 24/101 (23%), Positives = 48/101 (47%), Gaps = 11/101 (10%)
Query: 40 FRCSNEKGYFTVS--EKCTDFCQDDLADDDMMILDNGE--QVFLWLGSKCSEVEVKLAYK 95
++ S+ G ++ + F + L DD +LDNG ++++W G K +E E + A +
Sbjct: 251 YKVSDATGQMNLTKVADSSPFALELLISDDCFVLDNGLCGKIYIWKGRKANEKERQAALQ 310
Query: 96 SALVYIQHLRAKEPERPR--KLFLTLKGKESRRFTKCFHAW 134
A +I + + ++ + +G+ES F + F W
Sbjct: 311 VAEGFISRM-----QYAPNTQVEILPQGRESPIFKQFFKDW 346
Score = 44.9 bits (105), Expect = 2e-06
Identities = 19/92 (20%), Positives = 31/92 (33%), Gaps = 4/92 (4%)
Query: 40 FRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYKSALV 99
R KG + D D ILD G+ +F W G K + +E A
Sbjct: 136 QRLYQVKGKKNIRATERALNWDSFNTGDCFILDLGQNIFAWCGGKSNILERNK----ARD 191
Query: 100 YIQHLRAKEPERPRKLFLTLKGKESRRFTKCF 131
+R E + ++ + G+E +
Sbjct: 192 LALAIRDSERQGKAQVEIVTDGEEPAEMIQVL 223
>1kcq_A Gelsolin, brevin, ADF, AGEL; alpha-beta structure, actin-binding
protein, familial amyloi finnish type, cadmium binding,
metal binding; 1.65A {Homo sapiens} SCOP: d.109.1.1
Length = 104
Score = 41.7 bits (98), Expect = 5e-06
Identities = 20/96 (20%), Positives = 35/96 (36%), Gaps = 9/96 (9%)
Query: 36 RLFGFRCSNEKGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYK 95
RLF + KG V + + D ILD G + W GS + E A +
Sbjct: 4 RLF--QV---KGRRVVRATEVPVSWESFNNGDCFILDLGNNIHQWCGSNSNRYERLKATQ 58
Query: 96 SALVYIQHLRAKEPERPRKLFLTLKGKESRRFTKCF 131
+ + +R E ++ ++ +G E +
Sbjct: 59 VS----KGIRDNERSGRARVHVSEEGTEPEAMLQVL 90
>1svq_A Severin; actin-binding; NMR {Dictyostelium discoideum} SCOP:
d.109.1.1 PDB: 1svr_A 1svy_A
Length = 114
Score = 37.5 bits (87), Expect = 2e-04
Identities = 17/87 (19%), Positives = 26/87 (29%), Gaps = 5/87 (5%)
Query: 46 KGYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKCSEVEVKLAYKSALVYIQHLR 105
G L D +LD G ++ + GSK S E A + A + +
Sbjct: 19 SGDKNAKVAEVPLATSSLNSGDCFLLDAGLTIYQFNGSKSSPQEKNKAAEVA----RAID 74
Query: 106 AKEPERPRKLFLTL-KGKESRRFTKCF 131
A+ P+ F K
Sbjct: 75 AERKGLPKVEVFCETDSDIPAEFWKLL 101
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 37.1 bits (85), Expect = 0.001
Identities = 16/102 (15%), Positives = 26/102 (25%), Gaps = 31/102 (30%)
Query: 61 DDLA--DDDMMILDNGEQVF--LWLGSKCSEVEV---KLAYKSAL--------VYI---- 101
D L+ I + +W S+V V KL S + + I
Sbjct: 376 DRLSVFPPSAHI---PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 102 QHLRAKEPERP---RKLFLTLKGKESRRFTKCFHAWSFHKKP 140
L+ K R + + K F +
Sbjct: 433 LELKVKLENEYALHRSIV------DHYNIPKTFDSDDLIPPY 468
Score = 31.0 bits (69), Expect = 0.12
Identities = 17/126 (13%), Positives = 37/126 (29%), Gaps = 28/126 (22%)
Query: 32 SNLARLFGFRC-----SNEKGYFTV--SEKCTDFCQDDLADDDMMILDNGEQVFL-WLGS 83
+ F C + K + T D + D + + L +L
Sbjct: 256 AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH--SMTLTPDEVKSLLLKYLDC 313
Query: 84 KCSEV--EVK------LAYKSALV--------YIQHLRAKEPERPRKLFL-TLKGKESRR 126
+ ++ EV L+ + + +H+ + + L L+ E R+
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 127 -FTKCF 131
F +
Sbjct: 374 MFDRLS 379
Score = 29.1 bits (64), Expect = 0.54
Identities = 25/167 (14%), Positives = 48/167 (28%), Gaps = 54/167 (32%)
Query: 3 TIIVVAYCWSKGT----------FQSYASSINKRN-QGKVSNLARLFGFRCSNEKGYFTV 51
I+++ W Y S + K+ + +S + + E Y +
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKY-SLVEKQPKESTISIPSIYLELKVKLENEY-AL 445
Query: 52 SEKCTD-------FCQDDLADD--D----------MMILDNGE------QVFL---WLGS 83
D F DDL D + +++ E VFL +L
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505
Query: 84 KCSEVEVKLAYKSALV--------YIQHLRAKEPERPRKL-----FL 117
K +++ Y ++ +P+ R + FL
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
>3zq7_A KDP operon transcriptional regulatory protein KDP; response
regulator; 2.52A {Escherichia coli}
Length = 102
Score = 30.1 bits (69), Expect = 0.081
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 4/26 (15%)
Query: 99 VYIQHLRAK---EPERPRKLFLTLKG 121
+Y+ HLR K +P RPR F+T G
Sbjct: 71 IYMGHLRQKLEQDPARPR-HFITETG 95
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 31.3 bits (70), Expect = 0.11
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 63 LADDDMMILDNGEQVFLWLGSKCS 86
+ ++DNG ++FLW+G
Sbjct: 794 FERYGLYLIDNGNELFLWMGGDAV 817
>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase;
BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A
{Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*
Length = 831
Score = 30.7 bits (69), Expect = 0.16
Identities = 11/41 (26%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 82 GSKCSEVEVKLAYKSALVYIQHLRAKEPERPRKL-FLTLKG 121
GS E+ +K+A++ V A E E+ + + L+G
Sbjct: 451 GSTAIEIALKMAFRKFCVDHNFCEATEEEKHIVVKVIALRG 491
>3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A
{Deinococcus radiodurans}
Length = 249
Score = 27.5 bits (62), Expect = 1.4
Identities = 8/25 (32%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 99 VYIQHLRAK--EPERPRKLFLTLKG 121
V++ +LRAK + + L T++G
Sbjct: 225 VHMANLRAKLRDLDGY-GLLRTVRG 248
>3q9v_A DNA-binding response regulator; response regulator protein, DNA
binding protein; 1.60A {Deinococcus radiodurans}
Length = 133
Score = 26.0 bits (58), Expect = 3.0
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
V++ +LRAK L T++G
Sbjct: 103 VHMANLRAKLRDLDGYGLLRTVRG 126
>2eb4_A 2-OXO-HEPT-3-ENE-1,7-dioate hydratase; lyase; 1.60A {Escherichia
coli} PDB: 2eb5_A 2eb6_A
Length = 267
Score = 26.3 bits (58), Expect = 3.6
Identities = 4/39 (10%), Positives = 11/39 (28%)
Query: 47 GYFTVSEKCTDFCQDDLADDDMMILDNGEQVFLWLGSKC 85
+ + + DL ++ NG + +
Sbjct: 169 AGVILGGRPIKPDELDLRWISALMYRNGVIEETGVAAGV 207
>2hwv_A DNA-binding response regulator VICR; essential response regulator,
C-terminal domain, DNA-binding transcription; 1.90A
{Enterococcus faecalis}
Length = 121
Score = 25.7 bits (57), Expect = 4.1
Identities = 6/18 (33%), Positives = 8/18 (44%), Gaps = 3/18 (16%)
Query: 99 VYIQHLRAK---EPERPR 113
V ++ LR K P P
Sbjct: 86 VTVRRLREKIEDSPSHPT 103
>3eh2_A Protein transport protein SEC24C; copii-coat protein, vesicle
transport, cytoplasm, endoplasmic reticulum, ER-golgi
transport, golgi apparatus; 2.35A {Homo sapiens}
Length = 766
Score = 26.4 bits (57), Expect = 4.2
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 63 LADDDMMILDNGEQVFLWLGSKCS 86
L++ D+ +L+NG +FLW+G+
Sbjct: 647 LSNGDIYLLENGLNLFLWVGASVQ 670
>2vik_A Villin 14T; actin-binding protein, capping protein, calcium-binding
protein, cytoskeletal protein; NMR {Gallus gallus} SCOP:
d.109.1.1 PDB: 2vil_A
Length = 126
Score = 25.4 bits (55), Expect = 5.3
Identities = 12/55 (21%), Positives = 20/55 (36%), Gaps = 5/55 (9%)
Query: 77 VFLWLGSKCSEVEVKLAYKSALVYIQHLRAKEPERPRKLFLTLKGKESRRFTKCF 131
+ WLG S+ E +A +Y + + ++G ES F F
Sbjct: 61 IHYWLGKNSSQDE----QGAAAIYTTQMDEYLGSVAVQ-HREVQGHESETFRAYF 110
>2hqn_A Putative transcriptional regulator; phosporylation-independent
response regulator, signaling Pro; NMR {Helicobacter
pylori}
Length = 109
Score = 25.2 bits (56), Expect = 5.4
Identities = 5/24 (20%), Positives = 9/24 (37%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
V I +R K + T++
Sbjct: 72 VAINQIRQKMDKPLGISTVETVRR 95
>2nut_A Protein transport protein SEC23A; human copii SEC23/24 complexed
with SEC22, protein transport; 2.30A {Homo sapiens} PDB:
2nup_A 3egd_A 3eg9_A 3egx_A 3efo_A
Length = 769
Score = 26.0 bits (56), Expect = 5.7
Identities = 4/25 (16%), Positives = 14/25 (56%)
Query: 63 LADDDMMILDNGEQVFLWLGSKCSE 87
+ D ++++D Q+ ++ G ++
Sbjct: 646 ILADRILLMDTFFQILIYHGETIAQ 670
>1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA
binding domain, phosphorylation; 1.58A {Mycobacterium
tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A
Length = 233
Score = 25.5 bits (57), Expect = 5.7
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
V+I +LR K E +L T++G
Sbjct: 202 VFIGYLRRKLEAGGGPRLLHTVRG 225
>2jzy_A Transcriptional regulatory protein PCOR; two-component-system
response regulator, effector domain, DNA-binding,
phosphoprotein, plasmid; NMR {Klebsiella pneumoniae}
Length = 112
Score = 25.2 bits (56), Expect = 6.3
Identities = 8/24 (33%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
V ++ LR+K + + KL T++G
Sbjct: 71 VAVRRLRSKIDDDFEPKLIHTVRG 94
>3d6w_A Methyl-accepting/DNA response regulator; structural genomics,
APC7590, lyttr DNA-binding domain, METH accepting/DNA
response regulator, PSI-2; 2.40A {Bacillus cereus}
Length = 111
Score = 24.9 bits (55), Expect = 6.9
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 95 KSALVYIQHLRAKEPERPRKLFLTLKGKE----SRRFTKCFHAW 134
+S +V + H++A P+ L++ E S+ + F
Sbjct: 63 RSFIVNVNHIKAIYPDTHSTFLLSMDNGERVPVSQSYASYFRKL 106
>2z9m_A Response regulator YYCF; two-component system, YYCG, helix-turn-
helix motif, DNA-binding domain, phosphorylation,
transcription; 1.87A {Staphylococcus aureus} PDB: 2zxj_A
2d1v_A
Length = 120
Score = 24.9 bits (55), Expect = 6.9
Identities = 7/18 (38%), Positives = 9/18 (50%), Gaps = 3/18 (16%)
Query: 99 VYIQHLRAK---EPERPR 113
V I+ LR K +P P
Sbjct: 79 VTIRRLREKIEDDPSHPE 96
>3rjp_A COVR; winged helix-turn-helix, DNA binding, DNA binding protein;
1.50A {Streptococcus pyogenes}
Length = 96
Score = 24.7 bits (55), Expect = 7.0
Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
VYI++LR K + T++G
Sbjct: 65 VYIRYLRGKIDIPGKESYIQTVRG 88
>1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein,
ALPH-beta sandwich, winged-helix, helix helix, DNA
binding protein; HET: DNA MSE; 1.50A {Thermotoga
maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A*
Length = 225
Score = 25.1 bits (56), Expect = 8.0
Identities = 7/24 (29%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
+I++LR K + +K+ T++G
Sbjct: 194 SHIKNLRKKVDKGFKKKIIHTVRG 217
>2hqr_A Putative transcriptional regulator; phosporylation-independent
response regulator, H. pylori, SY dimer, signaling
protein; NMR {Helicobacter pylori}
Length = 223
Score = 25.1 bits (56), Expect = 8.1
Identities = 5/24 (20%), Positives = 9/24 (37%), Gaps = 1/24 (4%)
Query: 99 VYIQHLRAK-EPERPRKLFLTLKG 121
V I +R K + T++
Sbjct: 186 VAINQIRQKMDKPLGISTVETVRR 209
>2gwr_A DNA-binding response regulator MTRA; two-component regulatory
system, transcription regulation, phosphorylation, OMPR
family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A
Length = 238
Score = 25.2 bits (56), Expect = 8.9
Identities = 9/18 (50%), Positives = 12/18 (66%), Gaps = 3/18 (16%)
Query: 99 VYIQHLRAK---EPERPR 113
V++Q LRAK +PE P
Sbjct: 196 VHVQRLRAKVEKDPENPT 213
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.135 0.425
Gapped
Lambda K H
0.267 0.0591 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,109,168
Number of extensions: 108047
Number of successful extensions: 249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 243
Number of HSP's successfully gapped: 44
Length of query: 142
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,356,429
Effective search space: 252672882
Effective search space used: 252672882
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 (24.1 bits)