RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy680
(122 letters)
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle
dysfunction, inhibitor design, allosteric enzyme,
alternative splicing, CGMP binding; HET: WAN; 2.00A
{Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A
2k31_A*
Length = 878
Score = 93.7 bits (232), Expect = 1e-23
Identities = 31/91 (34%), Positives = 53/91 (58%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ +V+DI+ LD+ +L K ++ L+ AD SLF V K L+S++FD+ G+
Sbjct: 156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGST 215
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
L + + + + W GI+GHVA GE +N++
Sbjct: 216 LEEVSNNCIRLEWNKGIVGHVAALGEPLNIK 246
Score = 50.2 bits (119), Expect = 2e-08
Identities = 16/121 (13%), Positives = 37/121 (30%), Gaps = 7/121 (5%)
Query: 1 MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
+ + I + L+ + KK + + ++F V+ S VF +
Sbjct: 337 LDLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDED---CSDSFSSVFHMECEE 393
Query: 60 GLVYS---TADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAE 116
S T + +V T E +N+ + K+ + ++
Sbjct: 394 LEKSSDTLTREHDANKINYMYAQYVKNTMEPLNIPDVSKDKRFPWTTENTGNVNQQCIRS 453
Query: 117 I 117
+
Sbjct: 454 L 454
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF
domain, cyclic nucleotide phosphodiesterase hydrolase,
lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus}
Length = 180
Score = 71.0 bits (174), Expect = 8e-17
Identities = 21/95 (22%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 1 MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
++ +I + ++ + KT+ +S LL AD S+F R G + +++ ++ +
Sbjct: 10 FELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSRN-GIPEVATRLLNVTPTS 68
Query: 60 GL---VYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
+ + E P +GI G VA T + N+
Sbjct: 69 KFEDNLVNPDKETVFPLDIGIAGWVAHTKKFFNIP 103
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase;
HET: CMP; 1.90A {Anabaena SP}
Length = 398
Score = 69.9 bits (170), Expect = 2e-15
Identities = 19/90 (21%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
++++ + L+ + + LL AD ++F ++ + L S V
Sbjct: 15 LSMLDSHGFENILQEMLQSITLKTGELLGADRTTIFLLDEEKQ---ELWSIVAAGEGDRS 71
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNL 90
L E+ +P GI G VA + VN+
Sbjct: 72 L------EIRIPADKGIAGEVATFKQVVNI 95
Score = 44.1 bits (103), Expect = 2e-06
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 10/89 (11%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
A+ LDL+ K+ +D L++AD ++L+ ++R + L +K+ +
Sbjct: 203 KAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDRD---RHELWTKITQDNGST- 258
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVN 89
E+ VP G G G VA +G+ +N
Sbjct: 259 ------KELRVPIGKGFAGIVAASGQKLN 281
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A,
GAF-domains, allosteric regulation hydrolase, membrane;
3.02A {Homo sapiens}
Length = 691
Score = 67.4 bits (164), Expect = 1e-14
Identities = 20/92 (21%), Positives = 31/92 (33%), Gaps = 12/92 (13%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ + ++ DLD SL K + + A L V L KV
Sbjct: 18 LQLCGELY-DLDASSLQLKVLQYLQQETRASRCCLLLVSED---NLQLSCKVIGDK---- 69
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQK 92
+EV P G LG V +++ L+
Sbjct: 70 ---VLGEEVSFPL-TGCLGQVVEDKKSIQLKD 97
Score = 52.4 bits (125), Expect = 3e-09
Identities = 26/90 (28%), Positives = 48/90 (53%), Gaps = 10/90 (11%)
Query: 1 MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
+ + +++ L D+ L ++ + L +A+ S+F ++ + LV+KVFD
Sbjct: 184 LQVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLD-----QNELVAKVFD----G 234
Query: 60 GLVYSTADEVEVPWGVGILGHVAVTGETVN 89
G+V + E+ +P GI GHVA TG+ +N
Sbjct: 235 GVVDDESYEIRIPADQGIAGHVATTGQILN 264
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5'
guanosine monophosphate, hydrolase; HET: PCG; 2.86A
{Mus musculus} SCOP: d.110.2.1 d.110.2.1
Length = 368
Score = 66.6 bits (162), Expect = 3e-14
Identities = 20/90 (22%), Positives = 30/90 (33%), Gaps = 11/90 (12%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAG 60
+ + ++ DLD SL K + + A L V L KV
Sbjct: 17 LQLCGELF-DLDATSLQLKVLQYLQQETQATHCCLLLVSED---NLQLSCKVIG------ 66
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNL 90
+EV P +G LG V + + L
Sbjct: 67 -DKVLGEEVSFPLTMGRLGQVVEDKQCIQL 95
Score = 51.5 bits (123), Expect = 6e-09
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 9/79 (11%)
Query: 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEV 71
D+ L ++ + L +A+ S+F ++ + LV+KVFD G+V + E+ +
Sbjct: 196 DVSVLLQEIITEARNLSNAEICSVFLLD-----QNELVAKVFD----GGVVDDESYEIRI 246
Query: 72 PWGVGILGHVAVTGETVNL 90
P GI GHVA TG+ +N+
Sbjct: 247 PADQGIAGHVATTGQILNI 265
>2e4s_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A;
GAF domain, structural genomics, NPPSFA; HET: MSE CMP;
2.10A {Homo sapiens} PDB: 2zmf_A*
Length = 189
Score = 63.9 bits (156), Expect = 4e-14
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 1 MAIVRDI-ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA 59
+ + + + + SL + + L++AD +LF V+ + L S +FD+
Sbjct: 16 LDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKNK---ELYSDLFDIGEEK 72
Query: 60 --GLVYSTADEVEVPWGVGILGHVAVTGETVNL 90
V+ E+ GI G VA TGE +N+
Sbjct: 73 EGKPVFKKTKEIRFSIEKGIAGQVARTGEVLNI 105
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal
transduction; HET: MSE; 1.65A {Coxiella burnetii}
Length = 171
Score = 58.5 bits (142), Expect = 4e-12
Identities = 21/88 (23%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
I +++ +L+ K V + L AD SLF + G + L + GL
Sbjct: 13 ITQEVNAAPNLEQALKLVVVRLCEALPADACSLFICDDVHG--------EYVLMATQGLN 64
Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
++ + +G G++G V E +NL
Sbjct: 65 SKQVGKLRLKFGEGLIGLVGEREEPINL 92
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase;
PEP-phosphotransferase, GAF domain, structura genomics,
PSI-2, protein structure initiative; HET: MSE P4G;
1.55A {Acinetobacter SP}
Length = 171
Score = 56.2 bits (136), Expect = 3e-11
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 8/88 (9%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
IV++I + L V+ V+ + D S++ ++ R + L + GL
Sbjct: 15 IVQEINSSVSLHDSLDIMVNQVADAMKVDVCSIYLLDERNQ--------RYLLMASKGLN 66
Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
+ V + G++G V E VNL
Sbjct: 67 PESVGHVSLQLSEGLVGLVGQREEIVNL 94
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family
protein); redox sensor, heme, hypoxia, GAF domain,
transferase; HET: HEM; 1.40A {Mycobacterium
tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A*
2y79_A* 2y8h_A* 2vzw_A*
Length = 153
Score = 51.1 bits (123), Expect = 2e-09
Identities = 15/83 (18%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 8 ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTAD 67
A D DL++ + V + + L+DA ++ +R+ ++ V++ +
Sbjct: 2 AMDPDLEATLRAIVHSATSLVDARYGAMEVHDRQHR----VLHFVYEGIDEETV----RR 53
Query: 68 EVEVPWGVGILGHVAVTGETVNL 90
+P G+G++G + + + L
Sbjct: 54 IGHLPKGLGVIGLLIEDPKPLRL 76
>3oov_A Methyl-accepting chemotaxis protein, putative; structural
genomics, PSI-2, protein structure initiative; 2.20A
{Geobacter sulfurreducens}
Length = 169
Score = 50.0 bits (120), Expect = 6e-09
Identities = 8/88 (9%), Positives = 26/88 (29%), Gaps = 6/88 (6%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
I I + +D+ + + + + +L + ++ + R L G
Sbjct: 7 ISSRIQKSIDVDEVLRLCAEGLHDVLGYERVNILMADTART---SLSFVA---AVGTADF 60
Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
+ + G++ + +
Sbjct: 61 NPAGVVLPLDQRGGVITKCFTDRQVYMI 88
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens
PCA, structural genomics, PSI-2, midwest center for
structural G MCSG; 3.10A {Geobacter sulfurreducens}
Length = 181
Score = 49.6 bits (119), Expect = 1e-08
Identities = 17/88 (19%), Positives = 33/88 (37%), Gaps = 10/88 (11%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
I ++ D DL + + V+ L +++ E L + G
Sbjct: 20 ISMLVSSDFDLPEVLQHVTAKVATQLKVSVCNIYLREGDE----------VVLAATHGFD 69
Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
+ ++ + G GI G VA G+ ++L
Sbjct: 70 PAFIGKIRIKIGDGITGSVARDGQYISL 97
>3p01_A Two-component response regulator; PSI-2, midwest center for
structural genomics, protein struc initiative, MCSG,
signali protein; 2.65A {Nostoc SP}
Length = 184
Score = 42.6 bits (101), Expect = 4e-06
Identities = 8/90 (8%), Positives = 20/90 (22%), Gaps = 12/90 (13%)
Query: 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL 61
+V+ L+++ + + L +E + L + G
Sbjct: 34 VLVQVTQASNSLEAILTPIATAFAESFAVNACILQMLEGQT------------LSTIQGF 81
Query: 62 VYSTADEVEVPWGVGILGHVAVTGETVNLQ 91
+ TG+
Sbjct: 82 YSQQGTVNNWLNQDPLTNEAIATGQIQVAA 111
>3eea_A GAF domain/HD domain protein; structural genomics, PSI, MCSG,
protein structure initiative, midwest center for
structural genomics; HET: PG6; 1.80A {Geobacter
sulfurreducens}
Length = 162
Score = 42.0 bits (99), Expect = 5e-06
Identities = 10/88 (11%), Positives = 28/88 (31%), Gaps = 4/88 (4%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
++ D+ + K + L+ +++F +R R + A +
Sbjct: 4 GSERLSGLTDVDEVIKDLSRLLRKLVKTRWIAVYFFDRERR----DFAPARSTGLPASFL 59
Query: 63 YSTADEVEVPWGVGILGHVAVTGETVNL 90
+ P + +L + + + L
Sbjct: 60 PVFREMPLAPDKIPLLKSMLRKRQHLML 87
>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG,
structural genomics, midwest center for structural
genomics, protein S initiative; 2.45A {Bacillus
halodurans}
Length = 165
Score = 40.8 bits (96), Expect = 2e-05
Identities = 8/78 (10%), Positives = 19/78 (24%), Gaps = 9/78 (11%)
Query: 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE 70
+ L + +D + +L+ D S + G
Sbjct: 4 MSLDDIINNMIDKLKLLVHFDRISFLLLANETL--------KLSHVYPKGSHSLDIGS-T 54
Query: 71 VPWGVGILGHVAVTGETV 88
+P + +T+
Sbjct: 55 IPKEQSLYWSALDQRQTI 72
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein
structure initiative, structural genomics; 2.50A
{Chlorobium tepidum tls}
Length = 177
Score = 38.6 bits (90), Expect = 1e-04
Identities = 18/87 (20%), Positives = 29/87 (33%), Gaps = 5/87 (5%)
Query: 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL 61
I I D + L + D + +L D A + ++R R + VF L
Sbjct: 10 YIGDAIGTIRDPQELFRTVTDKLRLLFAFDSAVIITIDRERR-----EASVFFEMLRFEL 64
Query: 62 VYSTADEVEVPWGVGILGHVAVTGETV 88
+ G + GH+ TV
Sbjct: 65 PEQLRHQTRSIAGTWLEGHLDDRTVTV 91
>2qyb_A Membrane protein, putative; GAF domain, domain of putative
membrane protein, PSI-2, MCSG structural genomics;
2.40A {Geobacter sulfurreducens pca}
Length = 181
Score = 37.0 bits (86), Expect = 4e-04
Identities = 13/90 (14%), Positives = 29/90 (32%), Gaps = 10/90 (11%)
Query: 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV 62
+ R LDL+ + ++ + D A + V+ V + S +G
Sbjct: 8 ASEIMNRTLDLQIIMDDLLNLLLKEFKLDLAVIRLVDE---------KGVLRVRSYSGKG 58
Query: 63 YST-ADEVEVPWGVGILGHVAVTGETVNLQ 91
+ A + P +G ++ +
Sbjct: 59 IAGIAGKDWEPEIETYIGEAFLSNRLQFVN 88
>3cx5_C Cytochrome B-C1 complex subunit 8; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH UMQ
HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.32.1.1 f.21.1.2 PDB: 3cxh_C* 1ezv_C*
1kb9_C* 1kyo_C* 1p84_C* 2ibz_C*
Length = 385
Score = 32.6 bits (75), Expect = 0.018
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 14/52 (26%)
Query: 28 LDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVE-VPWGVGIL 78
L A+GAS FF+ + +H GL Y + W VG++
Sbjct: 81 LHANGASFFFM--------VMF-----MHMAKGLYYGSYRSPRVTLWNVGVI 119
>1pp9_C Cytochrome B; cytochrome BC1, membrane protein, heme protein,
rieske iron protein, cytochrome B, complex III; HET: BHG
HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP:
f.32.1.1 f.21.1.2 PDB: 1bgy_C* 1be3_C* 1l0n_C* 1ntk_C*
1ntm_C* 1ntz_C* 1nu1_C* 1l0l_C* 1ppj_C* 1sqb_C* 1sqp_C*
1sqq_C* 1sqv_C* 1sqx_C* 2a06_C* 2fyu_C* 2ybb_C* 1qcr_C*
3l70_C* 2bcc_C* ...
Length = 379
Score = 32.7 bits (75), Expect = 0.020
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 14/51 (27%)
Query: 28 LDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGIL 78
+ A+GAS+FF+ CL +H G GL Y + +E W +G++
Sbjct: 82 MHANGASMFFI--------CLY-----MHVGRGLYYGSYTFLET-WNIGVI 118
>2qjy_A Cytochrome B; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM
TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2;
2.40A {Rhodobacter sphaeroides} PDB: 2fyn_A* 2qjk_A*
2qjp_A* 1zrt_C* 2yiu_A*
Length = 445
Score = 32.0 bits (73), Expect = 0.030
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 16/51 (31%)
Query: 30 ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYS--TADEVEVPWGVGIL 78
A+GASLFF+ + LH GL Y A EV W VG+L
Sbjct: 98 ANGASLFFI--------AVY-----LHIFRGLYYGSYKAPR-EVTWIVGML 134
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase,
wild type, viral protein; 2.38A {Sindbis virus} SCOP:
b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 31.7 bits (71), Expect = 0.039
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIER 119
++ + KK K ++KKKK+ K K + +R
Sbjct: 77 KQPPKPKKPKPQEKKKKQPAKTKPGKRQR 105
Score = 30.9 bits (69), Expect = 0.075
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
++KK+ K+ K KK K ++KKKK + K
Sbjct: 70 RQKKQAPKQPPKPKKPKPQEKKKKQPAKTK 99
Score = 30.9 bits (69), Expect = 0.082
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
++K++ K+ K KK K ++KKK + + +
Sbjct: 69 PRQKKQAPKQPPKPKKPKPQEKKKKQPAKTK 99
Score = 30.5 bits (68), Expect = 0.10
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
K K+ K ++KKKK+ K K K+ + K
Sbjct: 80 PKPKKPKPQEKKKKQPAKTKPGKRQRMALK 109
Score = 29.8 bits (66), Expect = 0.18
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ K ++KKKK+ K K K+++ ++E R
Sbjct: 84 KPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114
Score = 28.2 bits (62), Expect = 0.62
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ + ++KK+ K+ K KK K E ++K+
Sbjct: 64 RPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQ 94
Score = 27.9 bits (61), Expect = 0.83
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
KK + ++KKKK+ K K K+++ ++ +
Sbjct: 82 PKKPKPQEKKKKQPAKTKPGKRQRMALKLEA 112
Score = 27.5 bits (60), Expect = 1.2
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ ++KK+ K+ K KK E+K+
Sbjct: 62 NPRPRPPPRQKKQAPKQPPKPKKPKPQEKKK 92
Score = 26.7 bits (58), Expect = 1.8
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
Q + + ++KK+ K+ K KK + + K
Sbjct: 61 QNPRPRPPPRQKKQAPKQPPKPKKPKPQEK 90
Score = 26.3 bits (57), Expect = 2.6
Identities = 8/31 (25%), Positives = 18/31 (58%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ + ++KK+ K+ K KK K + ++K+
Sbjct: 63 PRPRPPPRQKKQAPKQPPKPKKPKPQEKKKK 93
Score = 25.5 bits (55), Expect = 4.6
Identities = 4/31 (12%), Positives = 16/31 (51%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
Q + + + + ++KK+ K+ + ++ +
Sbjct: 56 QATRPQNPRPRPPPRQKKQAPKQPPKPKKPK 86
Score = 25.5 bits (55), Expect = 4.9
Identities = 6/39 (15%), Positives = 17/39 (43%)
Query: 82 AVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
AV+ + + + + + ++KK+ K+ + K
Sbjct: 48 AVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPKKPK 86
>1vf5_A Cytochrome B6; photosynthesis, membrane protein complex, electron
transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A
{Mastigocladus laminosus} SCOP: f.21.1.2 PDB: 2d2c_A*
2e74_A* 2e75_A* 2e76_A* 2zt9_A* 1q90_B*
Length = 215
Score = 31.6 bits (72), Expect = 0.039
Identities = 7/50 (14%), Positives = 15/50 (30%), Gaps = 14/50 (28%)
Query: 30 ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVY-STADEVEVPWGVGIL 78
AS+ + ++ LH + E+ W G++
Sbjct: 87 RWSASMMVL--------MMI-----LHVFRVYLTGGFKKPRELTWISGVI 123
>3uqy_S Hydrogenase-1 small chain; membrane-bound hydrogenase,
oxidoreductase; HET: LMT; 1.47A {Escherichia coli} PDB:
3usc_S* 3use_S*
Length = 335
Score = 30.8 bits (69), Expect = 0.081
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 8/63 (12%)
Query: 64 STADEVEVPWGVGILGHVA----VTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIER 119
STAD V G+ LG VA V + +++ ++ + + + + K+
Sbjct: 277 STADTV----GLTALGVVAAAVGVHAVASAVDQRRRHNQQPTETEHQPGNEDKQARSHHH 332
Query: 120 KRY 122
+
Sbjct: 333 HHH 335
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 30.4 bits (68), Expect = 0.14
Identities = 26/169 (15%), Positives = 39/169 (23%), Gaps = 60/169 (35%)
Query: 1 MAIVRDIARDLDLKSLSKKTVDNV----SVL-----LDADGASLFF---VE--RRRG--- 43
A D LKS D S L L + + VE RG
Sbjct: 1741 KAAFED------LKSKGLIPADATFAGHS-LGEYAALASLADVMSIESLVEVVFYRGMTM 1793
Query: 44 ---------GKKCL---------VSKVFDLHSGAGLVYSTADE----VEV-----PWGVG 76
G+ V+ F + +V VE+
Sbjct: 1794 QVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE---- 1849
Query: 77 ILGH-VAVTGETVNLQKKKE--KKKKKKKKKKKKKKKKKKKAEIERKRY 122
G+ L K +K + +K E+E +
Sbjct: 1850 --NQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.15
Identities = 6/28 (21%), Positives = 17/28 (60%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIE 118
Q+K+ ++ K +++ ++K K ++E
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKKDLE 121
Score = 28.6 bits (63), Expect = 0.41
Identities = 7/38 (18%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 90 LQKKKEKKKKKKKKKKKKKKK------KKKKAEIERKR 121
LQ+ K +++ ++K KK +++ ++E+ +
Sbjct: 98 LQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 135
Score = 25.9 bits (56), Expect = 3.1
Identities = 4/31 (12%), Positives = 17/31 (54%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ +E + +K +++++K+ ++ A +
Sbjct: 79 RLTQEPESIRKWREEQRKRLQELDAASKVME 109
Score = 25.5 bits (55), Expect = 4.4
Identities = 5/32 (15%), Positives = 17/32 (53%), Gaps = 6/32 (18%)
Query: 91 QKKKEKKKKKKKK------KKKKKKKKKKKAE 116
+ +++ ++K KK +++ ++ +K K
Sbjct: 106 KVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 137
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 29.9 bits (67), Expect = 0.20
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKK 113
+ + + KKKKKKKKK+ K
Sbjct: 84 DDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 29.5 bits (66), Expect = 0.23
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEI 117
+ + KKKKKKKKK+ ++
Sbjct: 85 DEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 28.0 bits (62), Expect = 0.73
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 78 LGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKK 114
L A+ + + + KKKKKKKKK+
Sbjct: 71 LERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKR 107
Score = 28.0 bits (62), Expect = 0.92
Identities = 10/35 (28%), Positives = 11/35 (31%)
Query: 82 AVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAE 116
E + E KKKKKKKK
Sbjct: 73 RSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKR 107
Score = 27.6 bits (61), Expect = 1.2
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
+ ++ KKKKKKKKK
Sbjct: 83 EDDEDGDGDGDGATGKKKKKKKKKRG 108
Score = 27.2 bits (60), Expect = 1.5
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 85 GETVNLQKKKEKKKKKKKKKKKKKKKK 111
E + KKKKKKKKK+ K
Sbjct: 85 DEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 25.3 bits (55), Expect = 6.2
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ ++ KKKKKKK + K
Sbjct: 83 EDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 29.3 bits (66), Expect = 0.23
Identities = 9/26 (34%), Positives = 19/26 (73%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
QK++E ++K ++ K K+K +K++ E
Sbjct: 313 QKRRETEEKMRRAKLAKEKAEKERLE 338
Score = 27.8 bits (62), Expect = 0.83
Identities = 6/26 (23%), Positives = 18/26 (69%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKK 114
N ++++ ++K ++ K K+K +K++
Sbjct: 312 NQKRRETEEKMRRAKLAKEKAEKERL 337
Score = 27.4 bits (61), Expect = 1.2
Identities = 8/29 (27%), Positives = 18/29 (62%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKK 114
E ++ +EK ++ K K+K +K++ +K
Sbjct: 311 ENQKRRETEEKMRRAKLAKEKAEKERLEK 339
>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 190
Score = 29.1 bits (64), Expect = 0.27
Identities = 4/30 (13%), Positives = 17/30 (56%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
++ +K+K ++ K+ ++++ +A +
Sbjct: 135 NTQDVRKRKTREAAKRNRRRRPQARFTPQN 164
Score = 25.2 bits (54), Expect = 5.9
Identities = 3/32 (9%), Positives = 16/32 (50%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+K K ++ K+ ++++ + + + ++
Sbjct: 138 DVRKRKTREAAKRNRRRRPQARFTPQNKQDVP 169
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
{Saccharomyces cerevisiae} SCOP: e.15.1.1
Length = 223
Score = 28.7 bits (64), Expect = 0.34
Identities = 9/27 (33%), Positives = 19/27 (70%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAE 116
Q +KE+KK+ ++KK+ + +++K E
Sbjct: 101 FQLQKEQKKQLTSQEKKQIRLEREKFE 127
Score = 27.6 bits (61), Expect = 1.1
Identities = 6/28 (21%), Positives = 18/28 (64%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ +K++KK+ ++KK+ + ++ + E
Sbjct: 102 QLQKEQKKQLTSQEKKQIRLEREKFEED 129
Score = 27.2 bits (60), Expect = 1.5
Identities = 7/29 (24%), Positives = 18/29 (62%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+ +K++KK+ ++KK+ + + E + Y
Sbjct: 102 QLQKEQKKQLTSQEKKQIRLEREKFEEDY 130
>1914_A Signal recognition particle 9/14 fusion protein; ALU domain, RNA
binding, signal recognition particle (SRP), translation
regulation; 2.53A {Mus musculus} SCOP: d.49.1.1 d.49.1.1
PDB: 1e8o_A* 1e8s_A 1ry1_C*
Length = 232
Score = 28.4 bits (63), Expect = 0.58
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIER 119
KK++KK K KK K + ++K +E +
Sbjct: 114 KKRDKKNKSKKSKPAQGGEQKLISEEDD 141
Score = 26.1 bits (57), Expect = 3.4
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERK 120
KK KK K KK K + ++K E
Sbjct: 114 KKRDKKNKSKKSKPAQGGEQKLISEEDD 141
Score = 25.3 bits (55), Expect = 5.2
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 88 VNLQKKKEKKKKKKKKKKKKKKKKKKK 114
L+K+ +K K KK K + ++K
Sbjct: 111 DGLKKRDKKNKSKKSKPAQGGEQKLIS 137
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 432
Score = 28.5 bits (63), Expect = 0.58
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAEIE 118
++EKK + K++KK K+K+
Sbjct: 111 HLVQREKKLSRTKEEKKAIKEKQDAEAEP 139
Score = 26.5 bits (58), Expect = 2.8
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+++KK + K++KK K+K+
Sbjct: 112 LVQREKKLSRTKEEKKAIKEKQDAEAEP 139
Score = 25.8 bits (56), Expect = 4.3
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+++KK + K++KK K+K + E + Y
Sbjct: 112 LVQREKKLSRTKEEKKAIKEKQDAEAEPY 140
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 28.1 bits (63), Expect = 0.70
Identities = 8/29 (27%), Positives = 17/29 (58%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+++ KK+KK+ + KKK + +E +
Sbjct: 477 EQEPSKKQKKQHEGSKKKAAARDVTLENR 505
Score = 27.0 bits (60), Expect = 1.9
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIER 119
E++ KK+KK+ + KKK A
Sbjct: 476 IEQEPSKKQKKQHEGSKKKAAARDVT 501
Score = 26.6 bits (59), Expect = 2.2
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 63 YSTADEVEVP-----WGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAE 116
Y T + VP + G + ++E KK+KK+ + KKK +
Sbjct: 444 YQTEKGITVPEKLKEFMPP--GLQELIPFVKPAPIEQEPSKKQKKQHEGSKKKAAARDV 500
Score = 25.8 bits (57), Expect = 4.0
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIE 118
+++ KK+KK+ + KKK ++
Sbjct: 476 IEQEPSKKQKKQHEGSKKKAAARDVT 501
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A
{Aquifex aeolicus} SCOP: d.27.1.1
Length = 112
Score = 27.3 bits (61), Expect = 0.74
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKA 115
+ K+ +K++ KK K + A
Sbjct: 86 GYEMKRVGDYYVFEKRESKKSKGGEAA 112
Score = 25.4 bits (56), Expect = 4.1
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAE 116
+ E K+ +K++ KK K
Sbjct: 85 EGYEMKRVGDYYVFEKRESKKSKGG 109
Score = 25.0 bits (55), Expect = 5.7
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAE 116
+ + K+ +K++ KK K E
Sbjct: 84 PEGYEMKRVGDYYVFEKRESKKSKGGE 110
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 27.9 bits (61), Expect = 0.77
Identities = 7/25 (28%), Positives = 8/25 (32%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKA 115
K K KK K +K K
Sbjct: 287 NTKDLKTGKKNSKMTAAQKALAKVD 311
Score = 25.9 bits (56), Expect = 4.1
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKK 114
N + K KK K +K K K
Sbjct: 287 NTKDLKTGKKNSKMTAAQKALAKVDK 312
Score = 25.9 bits (56), Expect = 4.2
Identities = 7/24 (29%), Positives = 8/24 (33%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKK 114
KK K +K K K K
Sbjct: 294 GKKNSKMTAAQKALAKVDKSGMKS 317
Score = 25.6 bits (55), Expect = 4.8
Identities = 7/26 (26%), Positives = 8/26 (30%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKK 114
K KK K +K K K
Sbjct: 288 TKDLKTGKKNSKMTAAQKALAKVDKS 313
Score = 25.6 bits (55), Expect = 5.0
Identities = 6/24 (25%), Positives = 8/24 (33%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKA 115
K + KK K +K K
Sbjct: 289 KDLKTGKKNSKMTAAQKALAKVDK 312
Score = 25.6 bits (55), Expect = 5.1
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ K K K KK K +K A++++
Sbjct: 282 DYTKFNTKDLKTGKKNSKMTAAQKALAKVDKS 313
Score = 25.2 bits (54), Expect = 7.8
Identities = 8/30 (26%), Positives = 9/30 (30%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKA 115
K K K KK K +KA
Sbjct: 277 VEAKEDYTKFNTKDLKTGKKNSKMTAAQKA 306
Score = 24.8 bits (53), Expect = 9.1
Identities = 7/24 (29%), Positives = 9/24 (37%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKA 115
KK K +K K K K+
Sbjct: 294 GKKNSKMTAAQKALAKVDKSGMKS 317
>2q8k_A Proliferation-associated protein 2G4; EBP1, PA2G4, methionine
aminopeptidase, PITA-bread, transcri; 1.60A {Homo
sapiens} PDB: 2v6c_A
Length = 401
Score = 27.8 bits (62), Expect = 0.78
Identities = 11/35 (31%), Positives = 15/35 (42%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
E L + +K +KKKKKK K + E
Sbjct: 360 ELKALLQSSASRKTQKKKKKKASKTAENATSGETL 394
Score = 25.5 bits (56), Expect = 5.8
Identities = 9/31 (29%), Positives = 14/31 (45%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKAE 116
+ L+ + +K +KKKKKK K
Sbjct: 357 QDAELKALLQSSASRKTQKKKKKKASKTAEN 387
Score = 25.5 bits (56), Expect = 6.2
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 83 VTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKA 115
V + + +K +KKKKKK K + A
Sbjct: 356 VQDAELKALLQSSASRKTQKKKKKKASKTAENA 388
Score = 24.7 bits (54), Expect = 9.1
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+K +KKKKKK K + + E +
Sbjct: 370 SRKTQKKKKKKASKTAENATSGETLEENE 398
Score = 24.7 bits (54), Expect = 9.9
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
++ +KKKKKK K + +E
Sbjct: 370 SRKTQKKKKKKASKTAENATSGETLEENE 398
>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin
assembly, protein binding; 2.55A {Homo sapiens} PDB:
2z6e_A
Length = 483
Score = 27.9 bits (62), Expect = 0.91
Identities = 7/36 (19%), Positives = 27/36 (75%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
E N++KKKE+++++ + + + K++++++ ++ + +
Sbjct: 394 ENENMRKKKEEEERRARMEAQLKEQRERERKMRKAK 429
Score = 25.6 bits (56), Expect = 5.2
Identities = 6/29 (20%), Positives = 19/29 (65%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K+E + +KKK++++++ + + E++
Sbjct: 392 KQENENMRKKKEEEERRARMEAQLKEQRE 420
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 27.9 bits (62), Expect = 0.92
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K+ ++K + KK+ K + + R
Sbjct: 632 GKQGGGTQQKAEGKKRPSTKGRGPDEVRGE 661
>3u5e_P L20A, YL17, 60S ribosomal protein L17-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_I
2ww9_I 2wwb_I 3o5h_Q 3o58_Q 3u5i_P 1s1i_N 3izc_V 3izs_V
3jyw_N
Length = 184
Score = 27.6 bits (61), Expect = 1.0
Identities = 7/36 (19%), Positives = 17/36 (47%)
Query: 87 TVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+ + +K+E K +KK + +++ +KR
Sbjct: 147 ELVVTEKEEAVAKAAEKKVVRLTSRQRGRIAAQKRI 182
Score = 24.5 bits (53), Expect = 9.5
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
K EKK + +++ + +K+
Sbjct: 158 AKAAEKKVVRLTSRQRGRIAAQKRIA 183
>3cl6_A PUUE allantoinase; URIC acid, nitrogen fixation, hydrolase; 1.58A
{Pseudomonas fluorescens} PDB: 3cl7_A 3cl8_A 1z7a_A
Length = 308
Score = 27.6 bits (61), Expect = 1.0
Identities = 7/44 (15%), Positives = 15/44 (34%)
Query: 43 GGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGE 86
G + +S V + G D+ + ++ + GE
Sbjct: 23 GKARIALSFVLNYEEGGERNILHGDKESEAFLSEMVSAQPLQGE 66
>3pe5_A Uncharacterized protein; structural genomics, PSI-biology, protein
structure initiati northeast structural genomics
consortium, NESG; 2.38A {Clostridium leptum}
Length = 403
Score = 27.6 bits (61), Expect = 1.2
Identities = 3/24 (12%), Positives = 7/24 (29%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKK 114
+ + K K+ +K
Sbjct: 12 NRDISSRSNGKNPFKRSTGRKVSN 35
Score = 26.5 bits (58), Expect = 2.7
Identities = 4/24 (16%), Positives = 8/24 (33%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKK 114
Q + + K K+ +K
Sbjct: 11 QNRDISSRSNGKNPFKRSTGRKVS 34
Score = 26.5 bits (58), Expect = 2.9
Identities = 3/24 (12%), Positives = 7/24 (29%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKK 114
+ + K K+ +K
Sbjct: 13 RDISSRSNGKNPFKRSTGRKVSNV 36
Score = 25.7 bits (56), Expect = 5.1
Identities = 3/24 (12%), Positives = 9/24 (37%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKK 114
+ ++ + K K+ +K
Sbjct: 10 PQNRDISSRSNGKNPFKRSTGRKV 33
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 27.6 bits (62), Expect = 1.2
Identities = 10/35 (28%), Positives = 14/35 (40%)
Query: 85 GETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIER 119
GE + KE K KK K K K +++
Sbjct: 437 GEPEFIPYIKELPKNTTSVKKAKGKNPKNTTSVKK 471
Score = 26.8 bits (60), Expect = 1.9
Identities = 10/32 (31%), Positives = 10/32 (31%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
L K KK K K K KK R
Sbjct: 448 LPKNTTSVKKAKGKNPKNTTSVKKAKGKNGSR 479
Score = 25.3 bits (56), Expect = 5.9
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 96 KKKKKKKKKKKKKKKKKKKAEIERKR 121
K+ K KK K K K K+
Sbjct: 446 KELPKNTTSVKKAKGKNPKNTTSVKK 471
>3izc_e 60S ribosomal protein RPL7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_e
3o58_G 3o5h_G 3u5e_F 3u5i_F
Length = 244
Score = 27.1 bits (59), Expect = 1.3
Identities = 5/32 (15%), Positives = 15/32 (46%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
++ ++ +K K+K+ ++ +K Y
Sbjct: 24 EQVAAERAARKAANKEKRAIILERNAAYQKEY 55
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 297
Score = 26.9 bits (59), Expect = 1.5
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+++ +KK KK+ KKK+ + K + ++K
Sbjct: 246 AIRENPVYEKKPKKEVKKKRWNRPKMSLAQKK 277
Score = 25.8 bits (56), Expect = 3.9
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+KK +K+ KKK+ + K +KK + +K
Sbjct: 254 EKKPKKEVKKKRWNRPKMSLAQKKDRVAQK 283
Score = 24.6 bits (53), Expect = 9.7
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 80 HVAVTGETVNLQKKKEKKKKKKKKKKK------KKKKKKKKAEIERK 120
H A+ V +K K++ KKK+ + K K + +KKA R
Sbjct: 244 HAAIRENPVYEKKPKKEVKKKRWNRPKMSLAQKKDRVAQKKASFLRA 290
>2xhc_A Transcription antitermination protein NUSG; 2.45A {Thermotoga
maritima}
Length = 352
Score = 27.0 bits (60), Expect = 1.8
Identities = 10/76 (13%), Positives = 25/76 (32%), Gaps = 1/76 (1%)
Query: 38 VERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKK 97
++ ++ ++S LH G + D + + V + N++K +
Sbjct: 46 LDATSPSERLILSPKAKLHVNNGKDVNKGDLIAEEPPI-YARRSGVIVDVKNVRKIVVET 104
Query: 98 KKKKKKKKKKKKKKKK 113
+K K +
Sbjct: 105 IDRKYTKTYYIPESAG 120
>1v3y_A Peptide deformylase; protein synthesis, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP:
d.167.1.1
Length = 192
Score = 26.8 bits (60), Expect = 1.9
Identities = 2/26 (7%), Positives = 10/26 (38%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKA 115
+ + + +K+ + K+ +
Sbjct: 167 FLEANRAELVRFQKEARALLKELSQG 192
Score = 25.2 bits (56), Expect = 5.5
Identities = 2/30 (6%), Positives = 14/30 (46%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAEIER 119
+++ + + + + +K+ + E+ +
Sbjct: 162 PKREAFLEANRAELVRFQKEARALLKELSQ 191
Score = 24.8 bits (55), Expect = 8.1
Identities = 5/28 (17%), Positives = 13/28 (46%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K K++ + + + + +K+A K
Sbjct: 161 KPKREAFLEANRAELVRFQKEARALLKE 188
Score = 24.8 bits (55), Expect = 8.6
Identities = 2/29 (6%), Positives = 13/29 (44%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
K++ + + + + +K+ + + +
Sbjct: 163 KREAFLEANRAELVRFQKEARALLKELSQ 191
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 26.8 bits (59), Expect = 1.9
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K+K+ + K KKK K A + KR
Sbjct: 347 GSLSSAKRKEPEPKGSTKKKAKTGAAGKFKR 377
Score = 26.4 bits (58), Expect = 3.1
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
++K+ + K KKK K + +R +
Sbjct: 349 LSSAKRKEPEPKGSTKKKAKTGAAGKFKRGK 379
Score = 26.0 bits (57), Expect = 3.5
Identities = 9/34 (26%), Positives = 13/34 (38%)
Query: 82 AVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKA 115
+ +K+ E K KKK K K K+
Sbjct: 345 VTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRG 378
Score = 25.2 bits (55), Expect = 6.2
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 87 TVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
V K+K+ + K KKK K A ++
Sbjct: 344 KVTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRG 378
Score = 25.2 bits (55), Expect = 7.5
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 81 VAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKK 114
+ + + KKK K K K+ K
Sbjct: 346 TGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRGK 379
>1pja_A Palmitoyl-protein thioesterase 2 precursor; hydrolase,
glycoprotein, lysosome; HET: NAG; 2.70A {Homo sapiens}
SCOP: c.69.1.13
Length = 302
Score = 26.7 bits (58), Expect = 2.0
Identities = 6/32 (18%), Positives = 11/32 (34%)
Query: 61 LVYSTADEVEVPWGVGILGHVAVTGETVNLQK 92
L+ D V PW G + +++
Sbjct: 222 LIGGPDDGVITPWQSSFFGFYDANETVLEMEE 253
>3rg0_A Calreticulin; beta-sandwich, chaperone, monoglucosylated proteins
binding, carbohydrate binding, calcium binding,
endoplasmic reticulu; 2.57A {Mus musculus}
Length = 332
Score = 26.6 bits (58), Expect = 2.2
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
K +K+ K K+ ++++ K E +
Sbjct: 304 GVTKAAEKQMKDKQDEEQRLKLEHHHHHH 332
Score = 25.8 bits (56), Expect = 3.8
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKK 114
ET + K EK+ K K+ ++++ K +
Sbjct: 301 ETWGVTKAAEKQMKDKQDEEQRLKLEHHH 329
>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_V 4a1c_V 4a1e_V
Length = 239
Score = 26.7 bits (58), Expect = 2.3
Identities = 8/32 (25%), Positives = 16/32 (50%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+ K E++K + K++K + KA+ Y
Sbjct: 21 KAKAEQRKASSAQMKQRKAEWISKAQKYAAEY 52
Score = 25.5 bits (55), Expect = 4.6
Identities = 6/34 (17%), Positives = 19/34 (55%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+K ++ K +++K + K++K + + ++Y
Sbjct: 15 RDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKY 48
>1paz_A Pseudoazurin precursor; electron transfer(cuproprotein); 1.55A
{Alcaligenes faecalis} SCOP: b.6.1.1 PDB: 1pza_A 1pzb_A
1pzc_A 2p80_D 3nyk_A 3paz_A 8paz_A 4paz_A 5paz_A 6paz_A
7paz_A 1py0_A*
Length = 123
Score = 26.2 bits (57), Expect = 2.4
Identities = 8/32 (25%), Positives = 16/32 (50%)
Query: 74 GVGILGHVAVTGETVNLQKKKEKKKKKKKKKK 105
+G++ +AV NL + KK K +++
Sbjct: 83 AMGMIALIAVGDSPANLDQIVSAKKPKIVQER 114
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 26.4 bits (57), Expect = 2.6
Identities = 6/37 (16%), Positives = 21/37 (56%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
E +++K +E+++K+ ++ K +++ + K+
Sbjct: 98 EPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKD 134
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A
{Helicobacter pylori} PDB: 2ew6_A* 2ew7_A
Length = 181
Score = 26.3 bits (59), Expect = 2.6
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIER 119
K++K +K+ K+ +KK+K K +
Sbjct: 155 KRKKFEKELKELQKKQKHKLEHHHHHH 181
Score = 25.2 bits (56), Expect = 5.7
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAE 116
L++KK +K+ K+ +KK+K K +
Sbjct: 154 LKRKKFEKELKELQKKQKHKLEHHHHH 180
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 140
Score = 26.1 bits (58), Expect = 2.7
Identities = 4/27 (14%), Positives = 10/27 (37%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIER 119
K K ++ + +K +I +
Sbjct: 3 KPIPKIGSRRNGRISSRKSASARKIPK 29
Score = 25.7 bits (57), Expect = 3.1
Identities = 3/23 (13%), Positives = 8/23 (34%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKK 114
K K ++ + +K +
Sbjct: 3 KPIPKIGSRRNGRISSRKSASAR 25
Score = 25.7 bits (57), Expect = 3.4
Identities = 3/26 (11%), Positives = 9/26 (34%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
K ++ + +K +K +
Sbjct: 4 PIPKIGSRRNGRISSRKSASARKIPK 29
Score = 25.0 bits (55), Expect = 5.7
Identities = 3/26 (11%), Positives = 9/26 (34%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEI 117
K ++ + +K +K +
Sbjct: 6 PKIGSRRNGRISSRKSASARKIPKGV 31
Score = 24.6 bits (54), Expect = 9.0
Identities = 2/26 (7%), Positives = 8/26 (30%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEI 117
+ ++ + +K +K
Sbjct: 4 PIPKIGSRRNGRISSRKSASARKIPK 29
>2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 184
Score = 26.0 bits (57), Expect = 3.0
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 81 VAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKA 115
+ +T + + K +E+ +KKK +KK KK+K A
Sbjct: 148 MILTEKEQIVPKPEEEVAQKKKISQKKLKKQKLMA 182
Score = 25.3 bits (55), Expect = 5.2
Identities = 8/34 (23%), Positives = 20/34 (58%)
Query: 87 TVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ L +K++ K +++ +KKK +KK + ++
Sbjct: 147 EMILTEKEQIVPKPEEEVAQKKKISQKKLKKQKL 180
>3st8_A Bifunctional protein GLMU; acetyltransferase, pyrophosphorylase,
rossmann fold, LEFT-handed-beta-helix, cell shape; HET:
COA GP1 UD1; 1.98A {Mycobacterium tuberculosis} PDB:
3spt_A* 3foq_A 3dk5_A 3d8v_A 3d98_A* 3dj4_A 2qkx_A*
Length = 501
Score = 26.4 bits (59), Expect = 3.1
Identities = 5/31 (16%), Positives = 15/31 (48%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
Q+ E ++K+ + K+ +E+ ++
Sbjct: 460 QRNIENWVQRKRPGSPAAQASKRASEMACQQ 490
>3iz5_e 60S ribosomal protein L7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_e
Length = 244
Score = 26.0 bits (56), Expect = 3.2
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
+KK+K +K K + K +AE
Sbjct: 26 AEKKQKVAAEKIKAAENTKVIYARAE 51
Score = 25.2 bits (54), Expect = 6.2
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+ +KK+K +K K + K ++Y
Sbjct: 20 REEVWAAEKKQKVAAEKIKAAENTKVIYARAEQY 53
>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K*
Length = 151
Score = 25.9 bits (57), Expect = 3.2
Identities = 3/26 (11%), Positives = 6/26 (23%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEI 117
KK +K+ +
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANENVF 28
Score = 25.2 bits (55), Expect = 6.3
Identities = 3/25 (12%), Positives = 6/25 (24%)
Query: 94 KEKKKKKKKKKKKKKKKKKKKAEIE 118
+K +K+ E
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANENV 27
Score = 24.8 bits (54), Expect = 8.3
Identities = 3/23 (13%), Positives = 6/23 (26%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKK 113
KK +K+ +
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANE 25
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 26.2 bits (57), Expect = 3.2
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K EKK K++ + KK ++ K E +
Sbjct: 254 KPTEKKFTKEQYAAESKKYRQTKLSKEERA 283
Score = 24.7 bits (53), Expect = 9.6
Identities = 7/30 (23%), Positives = 17/30 (56%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ ++K K++ + KK ++ K ++ ER
Sbjct: 254 KPTEKKFTKEQYAAESKKYRQTKLSKEERA 283
>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein,
ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP;
1.78A {Arabidopsis thaliana}
Length = 212
Score = 25.8 bits (57), Expect = 3.4
Identities = 4/20 (20%), Positives = 11/20 (55%)
Query: 90 LQKKKEKKKKKKKKKKKKKK 109
LQ + K+ +++K ++
Sbjct: 179 LQPPRRKEVPRRRKNHRRSG 198
Score = 25.8 bits (57), Expect = 4.3
Identities = 3/22 (13%), Positives = 12/22 (54%)
Query: 96 KKKKKKKKKKKKKKKKKKKAEI 117
+ ++K+ +++K ++ I
Sbjct: 180 QPPRRKEVPRRRKNHRRSGCSI 201
Score = 25.0 bits (55), Expect = 7.5
Identities = 2/19 (10%), Positives = 11/19 (57%)
Query: 95 EKKKKKKKKKKKKKKKKKK 113
+ ++K+ +++K ++
Sbjct: 180 QPPRRKEVPRRRKNHRRSG 198
Score = 24.6 bits (54), Expect = 9.6
Identities = 2/19 (10%), Positives = 11/19 (57%)
Query: 94 KEKKKKKKKKKKKKKKKKK 112
+ ++K+ +++K ++
Sbjct: 180 QPPRRKEVPRRRKNHRRSG 198
Score = 24.6 bits (54), Expect = 9.9
Identities = 2/19 (10%), Positives = 10/19 (52%)
Query: 92 KKKEKKKKKKKKKKKKKKK 110
+ +K+ +++K ++
Sbjct: 180 QPPRRKEVPRRRKNHRRSG 198
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_C 4a1c_C 4a1e_C
Length = 410
Score = 26.3 bits (57), Expect = 3.4
Identities = 9/46 (19%), Positives = 15/46 (32%)
Query: 77 ILGHVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
I+ A + K++ K +K K KK + K
Sbjct: 339 IVKEQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKAN 384
>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics,
GTP1OBG, PSI, protein structure initiative; 2.80A
{Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2
Length = 392
Score = 25.9 bits (58), Expect = 3.4
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAEIE 118
++K E +K + + K KK E
Sbjct: 159 VEKHLEGLRKITSRGANTLEMKAKKEEQA 187
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA
complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP:
d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A*
1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A*
1lpq_A* 1rr8_C* 1ej9_A*
Length = 591
Score = 26.3 bits (57), Expect = 3.5
Identities = 7/27 (25%), Positives = 16/27 (59%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKKKAE 116
+ + E +K+ K++K K K++ +K
Sbjct: 135 FKAQTEARKQMSKEEKLKIKEENEKLL 161
Score = 25.9 bits (56), Expect = 4.2
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
K K K K KK + KKKK KK E ++ ++
Sbjct: 1 KPKNKDKDKKVPEPDNKKKKPKKEEEQKWKW 31
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 25.4 bits (55), Expect = 3.6
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K K KK K +K K KK + +RK
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKE 33
Score = 24.3 bits (52), Expect = 9.8
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKK 113
KK K +K K KKKK+K+K
Sbjct: 10 AKKAGKAQKNITKTDKKKKRKRK 32
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 26.0 bits (56), Expect = 3.7
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 80 HVAVTGETVNLQKKKEKKKKKKKKKKKKK---KKKKKKAEIE 118
H TG+ V L ++ ++ K++ +KK + I
Sbjct: 80 HFNKTGQRVYLHLRRTRRPKEEDPATGTGDPPRKKPTRLAIG 121
>3iz5_Q 60S ribosomal protein L5 (L18P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Q
Length = 304
Score = 26.2 bits (57), Expect = 3.7
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 96 KKKKKKKKKKKKKKKKKKKAEIERK 120
K KK+ K+ KK +RK
Sbjct: 254 AKSTKKEPATHKRYNLKKLTYEQRK 278
Score = 25.0 bits (54), Expect = 8.7
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
++ K KK+ K+ KK E+++
Sbjct: 246 AIRADPTMAKSTKKEPATHKRYNLKKLTYEQRK 278
Score = 25.0 bits (54), Expect = 9.1
Identities = 8/41 (19%), Positives = 19/41 (46%)
Query: 80 HVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
H A+ + + K++ K+ KK +++KA + +
Sbjct: 244 HAAIRADPTMAKSTKKEPATHKRYNLKKLTYEQRKASLVER 284
>3p8c_B NCK-associated protein 1; actin polymerization, protein binding;
2.29A {Homo sapiens}
Length = 1128
Score = 26.2 bits (57), Expect = 3.8
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 80 HVAVTGETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
H A T + + KK KK+ KK + +++K E RK
Sbjct: 632 HCAKT-----ISQAVNKKSKKQTGKKGEPEREKPGVESMRK 667
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain,
phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB:
2lb9_A*
Length = 208
Score = 25.7 bits (57), Expect = 4.1
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDAD 31
I I + L+L + + TV+ V L D
Sbjct: 20 RITHQIRQSLELDQILRATVEEVRAFLGTD 49
>1ux5_A BNI1 protein; structural protein, FH2 actin cytoskeleton; 2.5A
{Saccharomyces cerevisiae} SCOP: a.207.1.1 PDB: 1y64_B*
1ux4_A
Length = 411
Score = 25.6 bits (56), Expect = 4.4
Identities = 5/26 (19%), Positives = 11/26 (42%)
Query: 96 KKKKKKKKKKKKKKKKKKKAEIERKR 121
++ K K+K+ +K + R
Sbjct: 51 AAREIKSLASKRKEDLQKITFLSRDI 76
>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast,
protein binding; NMR {Saccharomyces cerevisiae} PDB:
2jmj_A*
Length = 90
Score = 25.1 bits (54), Expect = 4.6
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 96 KKKKKKKKKKKKKKKKK 112
K+ ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
Score = 25.1 bits (54), Expect = 4.6
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 97 KKKKKKKKKKKKKKKKK 113
K+ ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
Score = 25.1 bits (54), Expect = 4.6
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 98 KKKKKKKKKKKKKKKKK 114
K+ ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
Score = 24.7 bits (53), Expect = 5.8
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 92 KKKEKKKKKKKKKKKKK 108
K+ ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
Score = 24.3 bits (52), Expect = 7.3
Identities = 6/17 (35%), Positives = 12/17 (70%)
Query: 94 KEKKKKKKKKKKKKKKK 110
KE ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
Score = 24.0 bits (51), Expect = 9.6
Identities = 5/17 (29%), Positives = 12/17 (70%)
Query: 93 KKEKKKKKKKKKKKKKK 109
K+ ++ K K++K++K
Sbjct: 74 KEIANQRSKSKRQKRRK 90
>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_M 4a1c_M 4a1e_M
Length = 301
Score = 25.8 bits (56), Expect = 4.6
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ K KK K K+ KK K +RK
Sbjct: 260 RVKSTKKNDKPKRDHKKFYPTKLTAAQRK 288
>2zi0_A Protein 2B, TAV2B; RNAI suppression, nucleus, suppressor of RNA
silencing; 2.82A {Tomato aspermy virus} PDB: 3cz3_A
Length = 75
Score = 24.9 bits (53), Expect = 4.6
Identities = 9/34 (26%), Positives = 22/34 (64%)
Query: 88 VNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
L++ +KK+ ++K+ K +K++ K+ E++R
Sbjct: 13 RKLERMNQKKQAQRKRHKLNRKERGHKSPSEQRR 46
>3erx_A Pseudoazurin; copper protein, high-resolution, E transport,
metal-binding, transport; 1.25A {Paracoccus
pantotrophus} PDB: 1adw_A
Length = 123
Score = 25.0 bits (54), Expect = 5.0
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 74 GVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKKK 108
G+G++G V V NL K K KK +++
Sbjct: 83 GMGMVGLVQVGDAPENLDAAKTAKMPKKARERMDA 117
>3t6g_B Breast cancer anti-estrogen resistance protein 1; CDC25-homology
domain, GTPase exchange factor, focal-adhesio targeting
domain, signaling protein; 2.50A {Homo sapiens}
Length = 229
Score = 25.5 bits (55), Expect = 5.2
Identities = 10/37 (27%), Positives = 24/37 (64%)
Query: 86 ETVNLQKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
+ V+LQ K+E +K +K+ +K ++ K+++E ++
Sbjct: 22 DYVHLQGKEEFEKTQKELLEKGSITRQGKSQLELQQL 58
>3o2u_A NEDD8-conjugating enzyme UBC12; E2 conjugase, ligase; 2.00A
{Saccharomyces cerevisiae} PDB: 3tdi_C
Length = 190
Score = 25.1 bits (55), Expect = 6.6
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
K + +KKK+K+ + + R R
Sbjct: 5 KLRQLQKKKQKENENSSSIQPNLSAARIR 33
>2lgz_A Dolichyl-diphosphooligosaccharide--protein glycosyltransferase
subunit STT3; catalytic domain, oligosaccharyl
transferase; NMR {Saccharomyces cerevisiae}
Length = 273
Score = 25.2 bits (54), Expect = 6.9
Identities = 3/31 (9%), Positives = 9/31 (29%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKKKKKKAEIER 119
+ + + K ++ K+ R
Sbjct: 242 AQGRTLRDVGELTRSSTKTRRSIKRPELGLR 272
Score = 25.2 bits (54), Expect = 7.0
Identities = 3/28 (10%), Positives = 12/28 (42%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERK 120
+ + + + K ++ K+ E+ +
Sbjct: 245 RTLRDVGELTRSSTKTRRSIKRPELGLR 272
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D
3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D
3azj_D 3azk_D 3azl_D 3azm_D ...
Length = 126
Score = 24.7 bits (53), Expect = 7.0
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAE 116
KK KK K +KK KK+KK + E
Sbjct: 11 PKKGSKKAVTKTQKKGDKKRKKSRKE 36
Score = 24.4 bits (52), Expect = 8.9
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ KK KK K +KK KK + RK
Sbjct: 6 KSAPAPKKGSKKAVTKTQKKGDKKRKKSRKE 36
Score = 24.4 bits (52), Expect = 9.1
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 91 QKKKEKKKKKKKKKKKKKKKKKKKAEIERKRY 122
KK KK K +KK KK+KK + Y
Sbjct: 10 APKKGSKKAVTKTQKKGDKKRKKSRKESYSIY 41
>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME
MRD; 1.25A {Neisseria meningitidis}
Length = 167
Score = 24.8 bits (54), Expect = 7.2
Identities = 13/85 (15%), Positives = 24/85 (28%), Gaps = 12/85 (14%)
Query: 7 IARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTA 66
+A + D + T + + V+ R +L
Sbjct: 26 VADETDWVANLANTAAVLKEAFGWFWVGFYLVDTRSD----------ELVLAPF--QGPL 73
Query: 67 DEVEVPWGVGILGHVAVTGETVNLQ 91
+P+G G+ G G TV +
Sbjct: 74 ACTRIPFGRGVCGQAWAKGGTVVVG 98
>3d8k_A PP2C, protein phosphatase 2C; nysgrc, PSI-II, STR genomics, protein
structure initiative, NEW YORK structural research
consortium, nysgxrc; 2.71A {Toxoplasma gondii}
Length = 377
Score = 25.0 bits (54), Expect = 7.3
Identities = 5/24 (20%), Positives = 12/24 (50%)
Query: 5 RDIARDLDLKSLSKKTVDNVSVLL 28
D A+ + + + +K N+S +
Sbjct: 297 LDAAKAMVVNAKRRKVTKNISTFV 320
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision
pathway, N induced-FIT, hydrolase-hydrolase inhibitor
complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB:
3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A
3pn6_A 3m6r_A 3cpm_A
Length = 193
Score = 24.8 bits (55), Expect = 8.0
Identities = 5/29 (17%), Positives = 13/29 (44%)
Query: 93 KKEKKKKKKKKKKKKKKKKKKKAEIERKR 121
+ +++ + +KK ++K ER
Sbjct: 151 VLDSIREELEALEKKYEEKTGLPSPERVE 179
>3h6l_A Histone-lysine N-methyltransferase SETD2; SET domain-containing
protein 2, S-adenos methionine, structural genomics,
structural genomics consor SGC; HET: SAM; 1.99A {Homo
sapiens}
Length = 278
Score = 25.1 bits (55), Expect = 8.0
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 92 KKKEKKKKKKKKKKKKKKKK 111
+ + + K KK++ +K
Sbjct: 259 ENRVSIRAAGGKMKKERSRK 278
>3gqu_A NOP5P protein; RNA binding domain, RNA binding protein; 2.50A
{Pyrococcus horikoshii} PDB: 3gqx_B
Length = 169
Score = 24.9 bits (54), Expect = 8.2
Identities = 6/24 (25%), Positives = 17/24 (70%)
Query: 90 LQKKKEKKKKKKKKKKKKKKKKKK 113
+++K + K++K+++K +K K+
Sbjct: 146 IKEKYPRPPKRRKEERKGRKPWKE 169
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design,
malaria, PDF, peptide DEFO plasmodium, hydrolase; HET:
BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1
PDB: 1rqc_A 1jym_A
Length = 188
Score = 24.8 bits (55), Expect = 8.6
Identities = 2/22 (9%), Positives = 6/22 (27%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKK 113
+ K + + K +
Sbjct: 165 RPKLNELIRDYKATHSLEHHHH 186
>2f5k_A MORF-related gene 15 isoform 1; beta barrel, gene regulation; 2.20A
{Homo sapiens} SCOP: b.34.13.3 PDB: 2efi_A
Length = 102
Score = 24.4 bits (52), Expect = 8.9
Identities = 7/22 (31%), Positives = 15/22 (68%)
Query: 89 NLQKKKEKKKKKKKKKKKKKKK 110
NLQK++E +K +++ + K +
Sbjct: 81 NLQKQRELQKANQEQYAEGKMR 102
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 25.2 bits (54), Expect = 9.0
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 92 KKKEKKKKKKKKKKKKKKKKKKKAE 116
+ K + KK KK+K +++KKK+ E
Sbjct: 820 RAKARAKKTKKEKGPNEEEKKKEHE 844
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 24.8 bits (55), Expect = 9.1
Identities = 11/80 (13%), Positives = 28/80 (35%), Gaps = 11/80 (13%)
Query: 49 VSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQKKKEKKKKKKKKKKKK- 107
+ + + A + +P + G + V +K+ ++ ++ ++K
Sbjct: 768 ADLLPERPAKALVKAMPRVTARMP----LEGLLDVEEWRRRQEKRLKELLALAERSQRKL 823
Query: 108 ------KKKKKKKAEIERKR 121
+K K+ E E R
Sbjct: 824 ASPGFREKAPKEVVEAEEAR 843
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 24.8 bits (53), Expect = 9.6
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 1/81 (1%)
Query: 4 VRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSK-VFDLHSGAGLV 62
R + K ++TVD++ ++ D K+ L +F+ H+ G V
Sbjct: 312 PDAHMRMILRKPPGQRTVDDLEIIYDELLHIKALSHLSTTVKRELAGVLIFESHAKGGTV 371
Query: 63 YSTADEVEVPWGVGILGHVAV 83
E W + + G V V
Sbjct: 372 LFNQGEEGTSWYIILKGSVNV 392
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
0.313 0.132 0.357
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,840,213
Number of extensions: 111206
Number of successful extensions: 3695
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2417
Number of HSP's successfully gapped: 770
Length of query: 122
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 40
Effective length of database: 4,412,271
Effective search space: 176490840
Effective search space used: 176490840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (23.5 bits)