RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5960
(121 letters)
>1su3_A Interstitial collagenase; prodomain, hemopexin domain, exocite,
structural proteomics in europe, spine, structural
genomics, hydrolase; HET: EPE; 2.20A {Homo sapiens}
SCOP: a.20.1.2 b.66.1.1 d.92.1.11 PDB: 2clt_A 1fbl_A*
Length = 450
Score = 94.9 bits (235), Expect = 3e-24
Identities = 39/78 (50%), Positives = 51/78 (65%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
R + + +A +WS + LTF +V++ +ADI+I F + +H D PFDGPG LAHAF
Sbjct: 107 PRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAF 166
Query: 74 FPGSGRGGDAHFDIDEDW 91
PG G GGDAHFD DE W
Sbjct: 167 QPGPGIGGDAHFDEDERW 184
>3ba0_A Macrophage metalloelastase; FULL-length MMP-12, hemopexin domain,
catalytic domain, domain interaction., calcium,
extracellular matrix; 3.00A {Homo sapiens} PDB: 2jxy_A
Length = 365
Score = 90.4 bits (223), Expect = 5e-23
Identities = 40/80 (50%), Positives = 50/80 (62%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
+R + +R+A VWS + L F ++N ADIL+ F + H D + FDG G ILAHAF
Sbjct: 21 NREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAF 80
Query: 74 FPGSGRGGDAHFDIDEDWMV 93
PGSG GGDAHFD DE W
Sbjct: 81 GPGSGIGGDAHFDEDEFWTT 100
>1cge_A Fibroblast collagenase; hydrolase (metalloprotease); 1.90A {Homo
sapiens} SCOP: d.92.1.11 PDB: 2j0t_A 1ayk_A 1hfc_A*
2ayk_A 2tcl_A* 3ayk_A* 4ayk_A* 1cgl_A* 1cgf_A 966c_A*
3shi_A
Length = 168
Score = 82.9 bits (204), Expect = 2e-21
Identities = 39/82 (47%), Positives = 51/82 (62%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
R + + +A +WS + LTF +V++ +ADI+I F + +H D PFDGPG LA
Sbjct: 22 PDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLA 81
Query: 71 HAFFPGSGRGGDAHFDIDEDWM 92
HAF PG G GGDAHFD DE W
Sbjct: 82 HAFQPGPGIGGDAHFDEDERWT 103
>1y93_A Macrophage metalloelastase; matrix metalloproteinase, MMP12,
complex (elastase inhibitor), acetohydroxamic acid,
hydrola; 1.03A {Homo sapiens} SCOP: d.92.1.11 PDB:
1rmz_A 1ycm_A* 1z3j_A* 2hu6_A* 2oxu_A 2oxw_A 2oxz_A
3lik_A* 3lil_A* 3lir_A* 3ljg_A* 1os9_A 1os2_A 3f17_A*
3ehy_A* 3ehx_A* 3f15_A* 3f16_A* 3f18_A* 3f19_A* ...
Length = 159
Score = 80.2 bits (197), Expect = 1e-20
Identities = 40/81 (49%), Positives = 50/81 (61%)
Query: 12 HYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAH 71
+R + +R+A VWS + L F ++N ADIL+ F + H D + FDG G ILAH
Sbjct: 20 DMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAH 79
Query: 72 AFFPGSGRGGDAHFDIDEDWM 92
AF PGSG GGDAHFD DE W
Sbjct: 80 AFGPGSGIGGDAHFDEDEFWT 100
>1i76_A MMP-8;, neutrophil collagenase; hydrolase, complex
(metalloprotease/inhibitor); HET: BSI; 1.20A {Homo
sapiens} SCOP: d.92.1.11 PDB: 1i73_A* 1jao_A* 1jap_A
1jaq_A* 1jj9_A* 1mmb_A* 1zp5_A* 1zs0_A* 1zvx_A* 3dng_A*
3dpe_A* 3dpf_A* 1kbc_A* 1jan_A* 1bzs_A* 1mnc_A* 2oy2_A
1a86_A* 1jh1_A* 1a85_A ...
Length = 163
Score = 80.2 bits (197), Expect = 2e-20
Identities = 36/81 (44%), Positives = 46/81 (56%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
+ ++ A ++WS S L F ++ ADI I F + +H D PFDGP ILA
Sbjct: 23 PQLSEAEVERAIKDAFELWSVASPLIFTRISQGEADINIAFYQRDHGDNSPFDGPNGILA 82
Query: 71 HAFFPGSGRGGDAHFDIDEDW 91
HAF PG G GGDAHFD +E W
Sbjct: 83 HAFQPGQGIGGDAHFDAEETW 103
>3ayu_A 72 kDa type IV collagenase; protease, hydrolase-hydrolase inhibitor
complex; 2.00A {Homo sapiens} PDB: 1qib_A 1hov_A*
Length = 167
Score = 79.8 bits (196), Expect = 3e-20
Identities = 40/81 (49%), Positives = 49/81 (60%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
D + D RA VWS + L F ++D ADI+I F + H DGYPFDG +LA
Sbjct: 24 PDLDPETVDDAFARAFQVWSDVTPLRFSRIHDGEADIMINFGRWEHGDGYPFDGKDGLLA 83
Query: 71 HAFFPGSGRGGDAHFDIDEDW 91
HAF PG+G GGD+HFD DE W
Sbjct: 84 HAFAPGTGVGGDSHFDDDELW 104
>1hv5_A Stromelysin 3; inhibition, phosphinic inhibitor, hydrolase; HET:
CPS RXP; 2.60A {Mus musculus} SCOP: d.92.1.11
Length = 165
Score = 78.0 bits (191), Expect = 1e-19
Identities = 43/82 (52%), Positives = 53/82 (64%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
R ++R + AL VWS+ + LTF EV++ RADI+I F + H D PFDGPG ILA
Sbjct: 23 WQLVREQVRQTVAEALQVWSEVTPLTFTEVHEGRADIMIDFARYWHGDNLPFDGPGGILA 82
Query: 71 HAFFPGSGRGGDAHFDIDEDWM 92
HAFFP + R GD HFD DE W
Sbjct: 83 HAFFPKTHREGDVHFDYDETWT 104
>1hy7_A Stromelysin-1, MMP-3; mixed alpha beta structure, zinc protease,
inhibited, hydrol; HET: MBS; 1.50A {Homo sapiens} SCOP:
d.92.1.11 PDB: 1biw_A* 1bm6_A* 1bqo_A* 1b3d_A* 1cqr_A
1d5j_A* 1d7x_A* 1d8f_A* 1d8m_A* 1g05_A* 1g49_A* 1c3i_A*
1sln_A* 1uea_A 2srt_A* 1ums_A* 1umt_A* 2d1o_A* 3oho_A*
1ciz_A* ...
Length = 173
Score = 77.2 bits (189), Expect = 3e-19
Identities = 37/79 (46%), Positives = 48/79 (60%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
+ + + +AL VW + + LTF + + ADI+I F H D YPFDGPG +LAHA+
Sbjct: 27 PKDAVDSAVEKALKVWEEVTPLTFSRLYEGEADIMISFAVREHGDFYPFDGPGNVLAHAY 86
Query: 74 FPGSGRGGDAHFDIDEDWM 92
PG G GDAHFD DE W
Sbjct: 87 APGPGINGDAHFDDDEQWT 105
>830c_A MMP-13, MMP-13; matrix metalloprotease; HET: RS1; 1.60A {Homo
sapiens} SCOP: d.92.1.11 PDB: 456c_A* 1you_A* 4a7b_A*
3tvc_A* 1eub_A* 1xuc_A* 1xud_A* 1xur_A* 2yig_A* 3elm_A*
3i7g_A* 3i7i_A* 3zxh_A* 2ow9_A* 2ozr_A* 3kek_A* 3kej_A*
3kec_A* 2d1n_A* 1fls_A* ...
Length = 168
Score = 76.8 bits (188), Expect = 4e-19
Identities = 37/81 (45%), Positives = 46/81 (56%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
+ ++A VWS + L F ++D ADI+I F + H D YPFDGP +LA
Sbjct: 24 PDMTHSEVEKAFKKAFKVWSDVTPLNFTRLHDGIADIMISFGIKEHGDFYPFDGPSGLLA 83
Query: 71 HAFFPGSGRGGDAHFDIDEDW 91
HAF PG GGDAHFD DE W
Sbjct: 84 HAFPPGPNYGGDAHFDDDETW 104
>1slm_A Stromelysin-1; hydrolase, metalloprotease, fibroblast, collagen
degradation; 1.90A {Homo sapiens} SCOP: a.20.1.2
d.92.1.11
Length = 255
Score = 77.6 bits (190), Expect = 1e-18
Identities = 37/80 (46%), Positives = 48/80 (60%)
Query: 12 HYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAH 71
+ + + +AL VW + + LTF + + ADI+I F H D YPFDGPG +LAH
Sbjct: 107 DLPKDAVDSAVEKALKVWEEVTPLTFSRLYEGEADIMISFAVREHGDFYPFDGPGNVLAH 166
Query: 72 AFFPGSGRGGDAHFDIDEDW 91
A+ PG G GDAHFD DE W
Sbjct: 167 AYAPGPGINGDAHFDDDEQW 186
>1ck7_A Protein (gelatinase A); hydrolase (metalloprotease), FULL-length,
metalloproteinase; 2.80A {Homo sapiens} SCOP: a.20.1.2
b.66.1.1 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 PDB:
1gxd_A
Length = 631
Score = 77.3 bits (189), Expect = 5e-18
Identities = 40/79 (50%), Positives = 49/79 (62%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
D + D RA VWS + L F ++D ADI+I F + H DGYPFDG +LAHAF
Sbjct: 107 DPETVDDAFARAFQVWSDVTPLRFSRIHDGEADIMINFGRWEHGDGYPFDGKDGLLAHAF 166
Query: 74 FPGSGRGGDAHFDIDEDWM 92
PG+G GGD+HFD DE W
Sbjct: 167 APGTGVGGDSHFDDDELWT 185
Score = 53.0 bits (126), Expect = 2e-09
Identities = 13/78 (16%), Positives = 20/78 (25%), Gaps = 9/78 (11%)
Query: 23 RRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGP----GKILAHAFFPGSG 78
R W ++ R+ + +G P P G G
Sbjct: 281 RTDGYRWCGTTEDYDRDKKYGFCPETAMSTVGGNSEGAPCVFPFTFLGNKYESCTSAGRS 340
Query: 79 RG-----GDAHFDIDEDW 91
G A++D D W
Sbjct: 341 DGKMWCATTANYDDDRKW 358
>2ovx_A Matrix metalloproteinase-9 (EC 3.4.24.35) (MMP-9) type IV
collagenase) (92 kDa gelatinase)...; S1-prime pocket,
hydrolase-hydrola inhibitor complex; HET: 4MR; 2.00A
{Homo sapiens} SCOP: d.92.1.11 PDB: 2ovz_A* 2ow0_A*
2ow1_A* 2ow2_A* 1gkd_A* 1gkc_A*
Length = 159
Score = 73.4 bits (179), Expect = 7e-18
Identities = 40/81 (49%), Positives = 45/81 (55%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
R + D RA +WS + LTF V ADI+I F H DGYPFDG +LA
Sbjct: 21 EDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLA 80
Query: 71 HAFFPGSGRGGDAHFDIDEDW 91
HAF PG G GDAHFD DE W
Sbjct: 81 HAFPPGPGIQGDAHFDDDELW 101
>2jsd_A Matrix metalloproteinase-20; MMP-NNGH, structural genomics,
structural proteomics in europe, spine, spine-2,
spine2-complexes, hydrolase; HET: NGH; NMR {Homo
sapiens}
Length = 160
Score = 73.3 bits (179), Expect = 8e-18
Identities = 37/82 (45%), Positives = 43/82 (52%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
+ + AL WS L+F +N ADI+I FE +H D YPFDGP LA
Sbjct: 19 PSMSSVEVDKAVEMALQAWSSAVPLSFVRINSGEADIMISFENGDHGDSYPFDGPRGTLA 78
Query: 71 HAFFPGSGRGGDAHFDIDEDWM 92
HAF PG G GGD HFD E W
Sbjct: 79 HAFAPGEGLGGDTHFDNAEKWT 100
>2xs4_A Karilysin protease; hydrolase, bacterial MMP, virulence factor,
metalloprotease, dependent, peptidase; 1.70A {Tannerella
forsythia} PDB: 2xs3_A
Length = 167
Score = 73.2 bits (179), Expect = 1e-17
Identities = 39/85 (45%), Positives = 50/85 (58%), Gaps = 4/85 (4%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVND-DRADILIYFEKENHWDGYPFDGPGKIL 69
H + +R A +WS S L+F +V + ++ADI I +EK NH DGYPFDG IL
Sbjct: 22 SHLTTTERENAIRSAFALWSDKSTLSFIQVYNPNQADIKIKWEKGNHGDGYPFDGNTGIL 81
Query: 70 AHAFFP---GSGRGGDAHFDIDEDW 91
AHAF+P G G HFD DE+W
Sbjct: 82 AHAFYPPPAGGNYAGHLHFDDDENW 106
>2y6d_A Matrilysin; hydrolase; HET: TQJ; 1.60A {Homo sapiens} PDB: 2ddy_A*
1mmq_A* 1mmp_A* 1mmr_A* 2y6c_A*
Length = 174
Score = 73.3 bits (179), Expect = 1e-17
Identities = 41/82 (50%), Positives = 50/82 (60%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILA 70
R + + +AL++W K L FR+V ADI+I F + H D YPFDGPG LA
Sbjct: 25 RDLPHITVDRLVSKALNMWGKEIPLHFRKVVWGTADIMIGFARGAHGDSYPFDGPGNTLA 84
Query: 71 HAFFPGSGRGGDAHFDIDEDWM 92
HAF PG+G GGDAHFD DE W
Sbjct: 85 HAFAPGTGLGGDAHFDEDERWT 106
>1rm8_A MMP-16, matrix metalloproteinase-16, MT3-MMP; membrane type -
matrix metalloproteinase, batimastat, hydroxamate
inhibitor, protease, hydrolase; HET: BAT; 1.80A {Homo
sapiens} SCOP: d.92.1.11
Length = 169
Score = 70.7 bits (172), Expect = 1e-16
Identities = 40/88 (45%), Positives = 43/88 (48%), Gaps = 7/88 (7%)
Query: 11 RHYDRGRLRDELRRALDVWSKHSKLTFREVNDDR-------ADILIYFEKENHWDGYPFD 63
R +RRA DVW + LTF EV DI I F H D PFD
Sbjct: 18 PKVGDPETRKAIRRAFDVWQNVTPLTFEEVPYSELENGKRDVDITIIFASGFHGDSSPFD 77
Query: 64 GPGKILAHAFFPGSGRGGDAHFDIDEDW 91
G G LAHA+FPG G GGD HFD DE W
Sbjct: 78 GEGGFLAHAYFPGPGIGGDTHFDSDEPW 105
>1eak_A 72 kDa type IV collagenase; hydrolase-hydrolase inhibitor complex,
hydrolyse, matrix metalloproteinase, gelatinase A,
hydrolase- hydrolase inhib complex; 2.66A {Homo sapiens}
SCOP: a.20.1.2 d.92.1.11 g.14.1.2 g.14.1.2 g.14.1.2 PDB:
1ks0_A 1cxw_A
Length = 421
Score = 71.1 bits (173), Expect = 8e-16
Identities = 40/79 (50%), Positives = 49/79 (62%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
D + D RA VWS + L F ++D ADI+I F + H DGYPFDG +LAHAF
Sbjct: 105 DPETVDDAFARAFQVWSDVTPLRFSRIHDGEADIMINFGRWEHGDGYPFDGKDGLLAHAF 164
Query: 74 FPGSGRGGDAHFDIDEDWM 92
PG+G GGD+HFD DE W
Sbjct: 165 APGTGVGGDSHFDDDELWT 183
Score = 50.3 bits (119), Expect = 1e-08
Identities = 13/78 (16%), Positives = 20/78 (25%), Gaps = 9/78 (11%)
Query: 23 RRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGP----GKILAHAFFPGSG 78
R W ++ R+ + +G P P G G
Sbjct: 279 RTDGYRWCGTTEDYDRDKKYGFCPETAMSTVGGNSEGAPCVFPFTFLGNKYESCTSAGRS 338
Query: 79 RG-----GDAHFDIDEDW 91
G A++D D W
Sbjct: 339 DGKMWCATTANYDDDRKW 356
>3ma2_D Matrix metalloproteinase-14; protein - protein complex, cleavage on
PAIR of basic residue disulfide bond, membrane,
metal-binding; 2.05A {Homo sapiens} PDB: 1bqq_M 1buv_M
Length = 181
Score = 68.4 bits (166), Expect = 1e-15
Identities = 37/90 (41%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 12 HYDRGRLRDELRRALDVWSKHSKLTFREV--------NDDRADILIYFEKENHWDGYPFD 63
+ +R+A VW + L FREV ++ +ADI+I+F + H D PFD
Sbjct: 23 KVGEYATYEAIRKAFRVWESATPLRFREVPYAYIREGHEKQADIMIFFAEGFHGDSTPFD 82
Query: 64 GPGKILAHAFFPGSGRGGDAHFDIDEDWMV 93
G G LAHA+FPG GGD HFD E W V
Sbjct: 83 GEGGFLAHAYFPGPNIGGDTHFDSAEPWTV 112
>1l6j_A Matrix metalloproteinase-9; twisted beta sheet flanked by helices,
hydrolase; 2.50A {Homo sapiens} SCOP: a.20.1.2 d.92.1.11
g.14.1.2 g.14.1.2 g.14.1.2
Length = 425
Score = 69.9 bits (170), Expect = 2e-15
Identities = 40/78 (51%), Positives = 45/78 (57%)
Query: 14 DRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAF 73
R + D RA +WS + LTF V ADI+I F H DGYPFDG +LAHAF
Sbjct: 114 PRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAF 173
Query: 74 FPGSGRGGDAHFDIDEDW 91
PG G GDAHFD DE W
Sbjct: 174 PPGPGIQGDAHFDDDELW 191
Score = 48.3 bits (114), Expect = 8e-08
Identities = 12/61 (19%), Positives = 19/61 (31%), Gaps = 5/61 (8%)
Query: 36 TFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAFFPGSGRG-----GDAHFDIDED 90
F ++ +PF GK + G G G ++FD D+
Sbjct: 306 LFGFCPTRADSTVMGGNSAGELCVFPFTFLGKEYSTCTSEGRGDGRLWCATTSNFDSDKK 365
Query: 91 W 91
W
Sbjct: 366 W 366
>1g9k_A Serralysin; beta jelly roll, hydrolase; 1.96A {Pseudomonas} SCOP:
b.80.7.1 d.92.1.6 PDB: 1o0q_A 1o0t_A 1om6_A 1om7_A
1om8_A 1omj_A 1h71_P
Length = 463
Score = 40.2 bits (93), Expect = 4e-05
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 9/74 (12%)
Query: 19 RDELRRALDVWSKHSKLTFREVNDDR-ADILIYFEKENHWDGYPFDGPGKILAHAFFPGS 77
+++ + +L+ W+ +K+TF E R D + F F A A+ P S
Sbjct: 86 KEQAKLSLESWADVAKVTFTEGPAARGDDGHMTF--------ANFSASNGGAAFAYLPNS 137
Query: 78 GRGGDAHFDIDEDW 91
R G++ + I++D+
Sbjct: 138 SRKGESWYLINKDY 151
>1k7i_A PROC, secreted protease C; metalloprotease, hydrolase; 1.59A
{Erwinia chrysanthemi} SCOP: b.80.7.1 d.92.1.6 PDB:
1k7g_A 1k7q_A 1go8_P 3hbv_P 3hda_P 3hbu_P 1go7_P 3hb2_P
Length = 479
Score = 38.3 bits (88), Expect = 2e-04
Identities = 15/74 (20%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 19 RDELRRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAFFPGSG 78
++ + +L WS + LTF EV +++ + + G G A+A++PG+
Sbjct: 102 IEQAKLSLQSWSDVANLTFTEVTGNKSANITFGNYTRDASGNLDYGTQ---AYAYYPGNY 158
Query: 79 -RGGDAHFDIDEDW 91
G + ++ ++
Sbjct: 159 QGAGSSWYNYNQSN 172
>1kap_P Alkaline protease; calcium binding protein, zinc metalloprotease;
1.64A {Pseudomonas aeruginosa} SCOP: b.80.7.1 d.92.1.6
PDB: 1jiw_P 1akl_A
Length = 479
Score = 32.3 bits (72), Expect = 0.028
Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 19 RDELRRALDVWSKHSKLTFREVND-DRADILIYFEKENHWDGYPFDGPGKILAHAFFPG- 76
+ + + +L WS + + F + D+ D+ F A AF P
Sbjct: 102 QAQAKLSLQSWSDVTNIHFVDAGQGDQGDLTFGN----------FSSSVGGAAFAFLPDV 151
Query: 77 -SGRGGDAHFDIDEDW 91
G + + I+ +
Sbjct: 152 PDALKGQSWYLINSSY 167
>1sat_A Serratia protease; parallel beta helix, parallel beta roll,
hydrolase (serine protease); 1.75A {Serratia marcescens}
SCOP: b.80.7.1 d.92.1.6 PDB: 1af0_A* 1smp_A 1srp_A
Length = 471
Score = 32.2 bits (72), Expect = 0.032
Identities = 16/79 (20%), Positives = 31/79 (39%), Gaps = 10/79 (12%)
Query: 19 RDELRRALDVWSKHSKLTFREVNDDR-ADILIYFEKENHWDGYPFDGPGKILAHAFFP-- 75
+ + + +L W+ + +TF EV + A+I P A+AF P
Sbjct: 86 QQQAKLSLQSWADVANITFTEVAAGQKANITFGNYS----QDRPGHYDYGTQAYAFLPNT 141
Query: 76 ---GSGRGGDAHFDIDEDW 91
G GG +++++
Sbjct: 142 IWQGQDLGGQTWYNVNQSN 160
>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 = 31.7 bits (71), Expect = 0.042
Identities = 8/64 (12%), Positives = 22/64 (34%), Gaps = 10/64 (15%)
Query: 3 LKHHPKRVRHYDRGRLRDELRRALDVWSKHSKLTFREVNDDRADILIYFEKEN----HWD 58
++ PK + + + ++ H + D +I F+ ++ + D
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIV------DHYNIPKTFDSDDLIPPYLD 470
Query: 59 GYPF 62
Y +
Sbjct: 471 QYFY 474
>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 = 27.3 bits (60), Expect = 1.4
Identities = 10/56 (17%), Positives = 16/56 (28%), Gaps = 9/56 (16%)
Query: 66 GKILAHAFFPGS-GRGGDAHFDIDEDWMVLGVSRSA--------NADEGKSLELAN 112
G + A GR I+ + S+ A G +E+ N
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN 1845
>1b7g_O Protein (glyceraldehyde 3-phosphate dehydrogenase; archaea,
hyperthermophIle, GAPDH, hyperthermophilic dehydrog
oxidoreductase; 2.05A {Sulfolobus solfataricus} SCOP:
c.2.1.3 d.81.1.1
Length = 340
Score = 26.6 bits (58), Expect = 2.4
Identities = 10/66 (15%), Positives = 16/66 (24%)
Query: 23 RRALDVWSKHSKLTFREVNDDRADILIYFEKENHWDGYPFDGPGKILAHAFFPGSGRGGD 82
+R D K + V + + Y K + P +G D
Sbjct: 14 KRVADAIIKQPDMKLVGVAKTSPNYEAFIAHRRGIRIYVPQQSIKKFEESGIPVAGTVED 73
Query: 83 AHFDID 88
D
Sbjct: 74 LIKTSD 79
>3io1_A Aminobenzoyl-glutamate utilization protein; peptidase_M20D
superfamily, protein structure initiative II, NYSGXRC,
structural genomics; 2.50A {Klebsiella pneumoniae subsp}
Length = 445
Score = 25.8 bits (57), Expect = 4.4
Identities = 8/29 (27%), Positives = 10/29 (34%), Gaps = 3/29 (10%)
Query: 72 AFFPGSGRGGDAH---FDIDEDWMVLGVS 97
G+ H FD DE M + V
Sbjct: 394 YMIFGTELSAGHHNEKFDFDESVMAVAVE 422
>2qx2_A Sex pheromone staph-CAM373; structural genomics, PSI-2, protein
structure initiative, M center for structural genomics,
MCSG; 1.90A {Staphylococcus aureus subsp}
Length = 344
Score = 25.7 bits (56), Expect = 4.4
Identities = 11/48 (22%), Positives = 20/48 (41%)
Query: 65 PGKILAHAFFPGSGRGGDAHFDIDEDWMVLGVSRSANADEGKSLELAN 112
PG+ + A S + +I+E +L S +A+ DE +
Sbjct: 203 PGEFITQATAEKSQTKLNEWHNINEKSALLPSSTAADYDENLNNNFKQ 250
>3edh_A Bone morphogenetic protein 1; vicinal disulfide, alternative
splicing, calcium, chondrogenesis, cleavage on PAIR of
basic residues, cytokine; 1.25A {Homo sapiens} PDB:
3edg_A 3edi_A
Length = 201
Score = 25.5 bits (56), Expect = 5.0
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 19 RDELRRALDVWSKHSKLTFREVNDDRADILIYFE 52
R R+A+ W KH+ +TF E D+ + I+ +
Sbjct: 28 RAVFRQAMRHWEKHTCVTFLERTDEDSYIVFTYR 61
>3lcc_A Putative methyl chloride transferase; halide methyltransferase;
HET: SAH; 1.80A {Arabidopsis thaliana}
Length = 235
Score = 25.4 bits (55), Expect = 5.5
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 72 AFFPGSGRGGDAHFDIDEDWMVLGVSRSANADE 104
A PG G G D + V+G+ S +A
Sbjct: 70 ALVPGCGGGHDVVAMASPERFVVGLDISESALA 102
>1ywk_A 4-deoxy-L-threo-5-hexosulose-uronate ketol- isomerase 1;
structural genomics, nysgxrc target T1814, PSI, protein
structure initiative; 2.95A {Enterococcus faecalis}
SCOP: b.82.1.13
Length = 289
Score = 25.3 bits (55), Expect = 5.6
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 5 HHPKRVRHYDRGRLRDE 21
H P +RHY +LRDE
Sbjct: 12 HSPADIRHYSTEQLRDE 28
>1xru_A 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomer; beta barrel,
cupin, isomerase; HET: 1PE; 1.94A {Escherichia coli}
SCOP: b.82.1.13 PDB: 1x8m_A
Length = 282
Score = 25.2 bits (55), Expect = 5.9
Identities = 5/17 (29%), Positives = 7/17 (41%)
Query: 5 HHPKRVRHYDRGRLRDE 21
H + D LR+E
Sbjct: 10 IHSAHAKTLDTQGLRNE 26
>1ysj_A Protein YXEP; M20 family peptidase, dinuclear metal binding,
structural GE PSI, protein structure initiative; 2.40A
{Bacillus subtilis} SCOP: c.56.5.4 d.58.19.1
Length = 404
Score = 24.8 bits (55), Expect = 8.0
Identities = 5/28 (17%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 73 FFPGSGRGGDAH---FDIDEDWMVLGVS 97
+ G+ + H F +DE+ + +
Sbjct: 363 VWMGTNGTEEWHHPAFTLDEEALTVASQ 390
>1hdj_A Human HSP40, HDJ-1; molecular chaperone; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 77
Score = 24.1 bits (53), Expect = 8.3
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 93 VLGVSRSANADEGK 106
LG++R A+ +E K
Sbjct: 8 TLGLARGASDEEIK 21
>1wza_A Alpha-amylase A; hydrolase, halophilic, thermophilic; 1.60A
{Halothermothrix orenii} SCOP: b.71.1.1 c.1.8.1
Length = 488
Score = 24.9 bits (55), Expect = 8.7
Identities = 6/36 (16%), Positives = 12/36 (33%), Gaps = 2/36 (5%)
Query: 21 ELRRALDVWSKHSKLTFREVNDDRADILIYFEKENH 56
+ R+ ++ EV D + YF+
Sbjct: 217 KFRQEIE--EVKPVYLVGEVWDISETVAPYFKYGFD 250
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 24.9 bits (55), Expect = 9.1
Identities = 3/12 (25%), Positives = 6/12 (50%)
Query: 93 VLGVSRSANADE 104
+LGV + +
Sbjct: 33 ILGVQPTDDLKT 44
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
0.320 0.140 0.443
Gapped
Lambda K H
0.267 0.0494 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,151,276
Number of extensions: 127473
Number of successful extensions: 394
Number of sequences better than 10.0: 1
Number of HSP's gapped: 386
Number of HSP's successfully gapped: 71
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
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: 51 (24.0 bits)