RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4643
(207 letters)
>1wzd_A Heme oxygenase; electron-transfer, artificial metalloprotein; HET:
YOK; 1.35A {Corynebacterium diphtheriae} SCOP: a.132.1.1
PDB: 1iw1_A* 1v8x_A* 1iw0_A* 1wzf_A* 1wzg_A* 2z68_A*
3i8r_A* 3moo_A* 1wnw_A* 1wnx_A* 1wnv_A*
Length = 215
Score = 107 bits (269), Expect = 2e-29
Identities = 43/199 (21%), Positives = 85/199 (42%), Gaps = 13/199 (6%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADL 60
M D G + + + + + LE A++ +++ + + + R E DL
Sbjct: 29 MSDLLKGRL-GVAEFTRLQEQAWLFYTALEQAVDAVRASGFAESLLDPALNRAEVLARDL 87
Query: 61 EHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTND-TLLIAYVYHMYLGVLS 119
+ G +W++ +V++Y+N LE+++ D L+A+ Y YLG LS
Sbjct: 88 DKLNGS---------SEWRSRITASPAVIDYVNRLEEIRDNVDGPALVAHHYVRYLGDLS 138
Query: 120 GGQIINKKRQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAE 179
GGQ+I + Q F+ + K + + L+ + + S + RE LL E
Sbjct: 139 GGQVIARMMQRHYGVDPEALGFYHFEGIAKLKVYKDEYREKLN--NLELSDEQREHLLKE 196
Query: 180 SRKVFLLNNSIIKCVLELL 198
+ F+ N+ + + + L
Sbjct: 197 ATDAFVFNHQVFADLGKGL 215
>2q32_A Heme oxygenase 2, HO-2; structural genomics medical relevance,
structural genomics community request, protein structure
in PSI; HET: OXN; 2.40A {Homo sapiens} PDB: 2qpp_A*
2rgz_A*
Length = 264
Score = 107 bits (267), Expect = 1e-28
Identities = 46/207 (22%), Positives = 90/207 (43%), Gaps = 16/207 (7%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYL-QQFNISDMKRTEAFEAD 59
+ DF G + ++ Y + LE ME +K + + ++ R EA D
Sbjct: 54 VKDFLKGNI-KKELFKLATTALYFTYSALEEEMERNKDHPAFAPLYFPMELHRKEALTKD 112
Query: 60 LEHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLS 119
+E++ G +W+ + + Y+ + + Q LL+A+ Y Y+G LS
Sbjct: 113 MEYFFGENWEEQVQAPK----------AAQKYVERIHYIGQNEPELLVAHAYTRYMGDLS 162
Query: 120 GGQIINK--KRQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLL 177
GGQ++ K +R L L + Q F+ N Q K+ ++ ++ + + +T+E+++
Sbjct: 163 GGQVLKKVAQRALKLPSTGEGTQFYLFENVDNAQQFKQLYRARMN--ALDLNMKTKERIV 220
Query: 178 AESRKVFLLNNSIIKCVLELLEVLLKT 204
E+ K F N I + + L +
Sbjct: 221 EEANKAFEYNMQIFNELDQAGSTLARE 247
>1we1_A Heme oxygenase 1; oxidoreductase; HET: HEM; 2.50A {Synechocystis
SP} SCOP: a.132.1.1
Length = 240
Score = 103 bits (258), Expect = 1e-27
Identities = 42/207 (20%), Positives = 85/207 (41%), Gaps = 13/207 (6%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADL 60
+ F G + + + + + + Y V+ +E M + K + L ++ R ++ E DL
Sbjct: 26 VKCFLKGVV-EKNSYRKLVGNLYFVYSAMEEEMAKFKDHPILSHIYFPELNRKQSLEQDL 84
Query: 61 EHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSG 120
+ Y G +W+ + K + Y++ + + T LL+A+ Y YLG LSG
Sbjct: 85 QFYYGSNWRQEVKISA----------AGQAYVDRVRQVAATAPELLVAHSYTRYLGDLSG 134
Query: 121 GQIINKKRQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAES 180
GQI+ K Q ++ + F + K + ++ + T E+++ E+
Sbjct: 135 GQILKKIAQNAMNLHDGGTAFYEFADIDDEKAFKNTYRQAMN--DLPIDQATAERIVDEA 192
Query: 181 RKVFLLNNSIIKCVLELLEVLLKTFDF 207
F +N + + L + F
Sbjct: 193 NDAFAMNMKMFNELEGNLIKAIGIMVF 219
>1n45_A Heme oxygenase 1, HO-1; alpha helices, heme-binding site,
oxidoreductase; HET: HEM; 1.50A {Homo sapiens} SCOP:
a.132.1.1 PDB: 1n3u_A* 1ozr_A* 1ozw_A* 1s13_A* 1s8c_A*
1t5p_A* 1twn_A* 1twr_A* 3czy_A* 3hok_A* 3k4f_A* 3tgm_A*
1xjz_A* 1xk3_A* 1xk2_A* 1ozl_A* 1oyk_A* 1oze_A* 1oyl_A*
1xk0_A* ...
Length = 233
Score = 101 bits (252), Expect = 8e-27
Identities = 49/202 (24%), Positives = 92/202 (45%), Gaps = 16/202 (7%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNIS-DMKRTEAFEAD 59
M +F G + + + Y ++ LE +E +K + ++ R A E D
Sbjct: 34 MRNFQKGQV-TRDGFKLVMASLYHIYVALEEEIERNKESPVFAPVYFPEELHRKAALEQD 92
Query: 60 LEHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLS 119
L + GP W+ P ++ Y+ L ++ +T LL+A+ Y YLG LS
Sbjct: 93 LAFWYGPRWQEVIPYTP----------AMQRYVKRLHEVGRTEPELLVAHAYTRYLGDLS 142
Query: 120 GGQIINK--KRQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLL 177
GGQ++ K ++ L L S +F + + K+ +S ++ S + + R++++
Sbjct: 143 GGQVLKKIAQKALDLPSSGEGLAFFTFPNIASATKFKQLYRSRMN--SLEMTPAVRQRVI 200
Query: 178 AESRKVFLLNNSIIKCVLELLE 199
E++ FLLN + + + ELL
Sbjct: 201 EEAKTAFLLNIQLFEELQELLT 222
>1wov_A Heme oxygenase 2; HOMO dimer, oxidoreductase; HET: HEM; 1.75A
{Synechocystis SP} SCOP: a.132.1.1 PDB: 1wow_A* 1wox_A*
Length = 250
Score = 100 bits (250), Expect = 2e-26
Identities = 50/211 (23%), Positives = 94/211 (44%), Gaps = 17/211 (8%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADL 60
M F G + + + + L Y ++ LE+A+ +H+ N+ + ++ RT+ DL
Sbjct: 25 MKCFLKGIV-EREPFRQLLANLYYLYSALEAALRQHRDNEIISAIYFPELNRTDKLAEDL 83
Query: 61 EHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSG 120
+Y GP+W+ +P P Y++ L+ + + LLIA+ Y YLG LSG
Sbjct: 84 TYYYGPNWQQIIQPTP----------CAKIYVDRLKTIAASEPELLIAHCYTRYLGDLSG 133
Query: 121 GQIINKKRQLSL-MKSNYQDQVLSFDPSVNVG---QLKRQIKSILDDESTQFSRQTREQL 176
GQ + + +L + + FD G Q K + +L+ S T ++
Sbjct: 134 GQSLKNIIRSALQLPEGEGTAMYEFDSLPTPGDRRQFKEIYRDVLN--SLPLDEATINRI 191
Query: 177 LAESRKVFLLNNSIIKCVLELLEVLLKTFDF 207
+ E+ F LN ++ + +L++ + F
Sbjct: 192 VEEANYAFSLNREVMHDLEDLIKAAIGEHTF 222
>1j02_A Heme oxygenase 1; alpha helix, O2-analog bound form,
oxidoreductase; HET: HEM; 1.70A {Rattus norvegicus}
SCOP: a.132.1.1 PDB: 1irm_C 1dve_A* 1ix3_A* 1ivj_A*
1ix4_A* 1j2c_A* 1ubb_A* 1ulx_A* 1vgi_A* 2dy5_A* 2e7e_A*
2zvu_A* 1dvg_A* 3i9t_A* 3i9u_A*
Length = 267
Score = 101 bits (251), Expect = 2e-26
Identities = 45/201 (22%), Positives = 90/201 (44%), Gaps = 16/201 (7%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNISD-MKRTEAFEAD 59
M +F G + + + Y ++ LE +E +K N + + R A E D
Sbjct: 34 MRNFQKGQV-SREGFKLVMASLYHIYTALEEEIERNKQNPVYAPLYFPEELHRRAALEQD 92
Query: 60 LEHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLS 119
+ + GP W+ P + +Y+ L ++ T+ LL+A+ Y YLG LS
Sbjct: 93 MAFWYGPHWQEAIPYTP----------ATQHYVKRLHEVGGTHPELLVAHAYTRYLGDLS 142
Query: 120 GGQIINKK--RQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLL 177
GGQ++ K + ++L S +F N + K+ ++ ++ + + + + + ++
Sbjct: 143 GGQVLKKIAQKAMALPSSGEGLAFFTFPSIDNPTKFKQLYRARMN--TLEMTPEVKHRVT 200
Query: 178 AESRKVFLLNNSIIKCVLELL 198
E++ FLLN + + + LL
Sbjct: 201 EEAKTAFLLNIELFEELQALL 221
>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 = 42.3 bits (99), Expect = 6e-05
Identities = 39/191 (20%), Positives = 66/191 (34%), Gaps = 45/191 (23%)
Query: 39 NQYLQQFNISDMKRTEAFEADLE---------HYLGPDWKADYKPRPDWKADYKPRESVV 89
+Q +QFN + TE F AD E +LG Y + + V+
Sbjct: 31 SQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG------YVSSLVEPSKVGQFDQVL 84
Query: 90 NY-LNHLED--LKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSLMKSNYQDQVLSFDP 146
N L E+ L + ND I H L + L+K+ ++++ P
Sbjct: 85 NLCLTEFENCYL-EGND---I----HALAAKLLQENDTTLVKTKELIKNYITARIMAKRP 136
Query: 147 SVNVGQLKRQIKSIL----DDES----TQFSRQ-TREQLLAESRKVF----LLNNSIIKC 193
++ S L + + F Q + E R ++ +L +IK
Sbjct: 137 ------FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKF 190
Query: 194 VLELLEVLLKT 204
E L L++T
Sbjct: 191 SAETLSELIRT 201
Score = 31.2 bits (70), Expect = 0.28
Identities = 19/97 (19%), Positives = 37/97 (38%), Gaps = 29/97 (29%)
Query: 128 RQLSLMKSNYQDQVLSFDPSVNV--------GQLKRQIKSILDDESTQFSRQ----TREQ 175
R L+L ++ S + + V QL+ Q IL + + F+ T +
Sbjct: 7 RPLTL---SHG----SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE 59
Query: 176 LLAESRKVFL------LNNSIIKCVLELLEVLLKTFD 206
L+ + FL + S + ++L + L F+
Sbjct: 60 LVGK----FLGYVSSLVEPSKVGQFDQVLNLCLTEFE 92
>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 = 31.0 bits (69), Expect = 0.29
Identities = 35/201 (17%), Positives = 65/201 (32%), Gaps = 70/201 (34%)
Query: 59 DLEHYLGPDWKADYKPRPDWKADYKPR-ESVVNYLNHLEDLKQTNDTLLI---------- 107
L + + P+W + R D ++ K R S+ L L K + LL+
Sbjct: 204 KLLYQIDPNWTS----RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259
Query: 108 ------------------------AYVYHMYLGVLSGG-----------QIINKKRQ--- 129
A H+ L S + ++ + Q
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 130 ----------LSLMKSNYQDQVLSFD--PSVNVGQLKRQIKSILDDESTQFSRQTREQLL 177
LS++ + +D + ++D VN +L I+S L+ R+ ++L
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL- 378
Query: 178 AESRKVFLLNNSIIKCVLELL 198
VF + I +L L+
Sbjct: 379 ----SVFPPSAHIPTILLSLI 395
Score = 29.4 bits (65), Expect = 0.83
Identities = 25/154 (16%), Positives = 50/154 (32%), Gaps = 22/154 (14%)
Query: 56 FEADLEHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYL 115
FE Y D + + + ++ D K D
Sbjct: 9 FETGEHQYQYKDILSVF--EDAFVDNF--------------DCKDVQDMPKSILSKEEID 52
Query: 116 GVLSGGQIINKKRQL-SLMKSNYQDQVLSFDPSV---NVGQLKRQIKSILDDESTQFSR- 170
++ ++ +L + S ++ V F V N L IK+ S
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 171 -QTREQLLAESRKVFLLNNSIIKCVLELLEVLLK 203
+ R++L +++ N S ++ L+L + LL+
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146
Score = 27.1 bits (59), Expect = 5.5
Identities = 26/190 (13%), Positives = 49/190 (25%), Gaps = 60/190 (31%)
Query: 30 ESAMEEHKSNQYLQQFNISDMKRTEAFEADLEHYLGPDWKADYKPRPDWKADYK-----P 84
ES + + + N + E+ L L P +Y+ + P
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTI--IESSLNV-LEPA---EYRKM------FDRLSVFP 382
Query: 85 RESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSLMKSNYQDQVLS- 143
L + + + V+ ++NK + SL++ ++ +S
Sbjct: 383 -----------PSAHIPTILLSLIWFDVIKSDVM---VVVNKLHKYSLVEKQPKESTISI 428
Query: 144 ----FD---PSVNVGQLKRQI----------------KSILDDESTQF-----SRQTREQ 175
+ N L R I LD +
Sbjct: 429 PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE 488
Query: 176 LLAESRKVFL 185
+ R VFL
Sbjct: 489 RMTLFRMVFL 498
>3d1c_A Flavin-containing putative monooxygenase; NP_373108.1, struc
genomics, joint center for structural genomics, JCSG;
HET: FAD UNL; 2.40A {Staphylococcus aureus}
Length = 369
Score = 28.2 bits (63), Expect = 1.9
Identities = 8/35 (22%), Positives = 14/35 (40%), Gaps = 3/35 (8%)
Query: 66 PDWKA---DYKPRPDWKADYKPRESVVNYLNHLED 97
PD A D P + ++ E+ YL + +
Sbjct: 65 PDMNAISMDTSPAFTFNEEHISGETYAEYLQVVAN 99
>2w16_A FPVA, ferripyoverdine receptor; FPVA, iron, membrane, TONB BOX,
transport, siderop cell membrane; HET: N8E PVE FHO;
2.71A {Pseudomonas aeruginosa} PDB: 2o5p_A* 2iah_A*
2w6t_A* 2w6u_A* 2w75_A* 2w76_A* 2w77_A* 2w78_A* 1xkh_A*
Length = 772
Score = 28.1 bits (63), Expect = 2.3
Identities = 6/26 (23%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 45 FNISDMKRTEAFEADLEHYLGPDWKA 70
++ + F A+LEH W
Sbjct: 345 WSSWEQYTRTVF-ANLEHNFANGWVG 369
>1xkw_A Fe(III)-pyochelin receptor; TONB dependent receptor, membrane
protein; HET: LDA 188; 2.00A {Pseudomonas aeruginosa}
Length = 665
Score = 28.0 bits (63), Expect = 2.5
Identities = 8/26 (30%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 45 FNISDMKRTEAFEADLEHYLGPDWKA 70
++ AF LE LG WK
Sbjct: 240 WDRFKWDTYRAF-GSLEQQLGGGWKG 264
>3efm_A FAUA, ferric alcaligin siderophore receptor; membrane protein,
membrane receptor, membrane transporter, membrane, TONB
box; 2.33A {Bordetella pertussis}
Length = 707
Score = 27.7 bits (62), Expect = 3.1
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 45 FNISDMKRTEAFEADLEHYLGPDWKA 70
+ D + T F DL H DWK
Sbjct: 270 WARQDTEATTYF-VDLTHRFTNDWKL 294
>1q8b_A Protein YJCS; structural genomics, PSI, protein structure
initiative, MIDW center for structural genomics, MCSG,
unknown function; 1.90A {Bacillus subtilis} SCOP:
d.58.4.6
Length = 105
Score = 26.4 bits (58), Expect = 4.0
Identities = 5/41 (12%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 18 GLLVFYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEA 58
++ +E+++ E A++ H + ++ ++ E
Sbjct: 61 RKIMLWEIWEN-EEAVKIHFTKKHTIDVQKQELTEVEWLMK 100
>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; ENDPLASMIC reticulum
stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 93
Score = 25.7 bits (56), Expect = 5.8
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 137 YQDQVLSFDPSVNVGQLKRQIKSILDDE 164
++D LS D +VG LK + + +
Sbjct: 19 HRDLELSGDRGWSVGHLKAHLSRVYPER 46
>3ayf_A Nitric oxide reductase; oxidoreductase; HET: HEM BOG EPE LOP; 2.50A
{Geobacillus stearothermophilus} PDB: 3ayg_A*
Length = 800
Score = 26.5 bits (58), Expect = 8.1
Identities = 5/10 (50%), Positives = 8/10 (80%)
Query: 63 YLGPDWKADY 72
Y+GPD+ A+
Sbjct: 93 YMGPDYTAEA 102
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 24.9 bits (54), Expect = 9.9
Identities = 8/28 (28%), Positives = 15/28 (53%)
Query: 137 YQDQVLSFDPSVNVGQLKRQIKSILDDE 164
Y DQ +S + VG+LK + ++ +
Sbjct: 35 YSDQTISCFLNWTVGKLKTHLSNVYPSK 62
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
0.319 0.135 0.389
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,054,727
Number of extensions: 165933
Number of successful extensions: 433
Number of sequences better than 10.0: 1
Number of HSP's gapped: 418
Number of HSP's successfully gapped: 24
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
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: 55 (25.5 bits)