RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16496
(245 letters)
>3n1g_B Desert hedgehog protein; binding sites, calcium, cell adhesion
molecules, cell cycle cell LINE, conserved sequence,
fibronectins; 1.90A {Homo sapiens} PDB: 3n1q_B
Length = 170
Score = 164 bits (417), Expect = 1e-51
Identities = 71/89 (79%), Positives = 81/89 (91%)
Query: 16 QRLKEKLNTLAISVMNEWPGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYG 75
+R KE++N LAI+VMN WPGVRLRV EGWDE+GHHA DSLHYEGRA+DITTSDRD +KYG
Sbjct: 82 ERCKERVNALAIAVMNMWPGVRLRVTEGWDEDGHHAQDSLHYEGRALDITTSDRDRNKYG 141
Query: 76 LLARMAVEAGFDWVYYESRNHIHCSVKTE 104
LLAR+AVEAGFDWVYYESRNH+H SVK +
Sbjct: 142 LLARLAVEAGFDWVYYESRNHVHVSVKAD 170
>2ibg_E Protein hedgehog, GH03927P; IHOG, fibronectin type III, protein
binding; 2.20A {Drosophila melanogaster} SCOP: d.65.1.2
Length = 150
Score = 160 bits (406), Expect = 3e-50
Identities = 65/89 (73%), Positives = 74/89 (83%)
Query: 16 QRLKEKLNTLAISVMNEWPGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYG 75
+R KEKLN LA SVMNEWPG+RL V E WDE+ HH +SLHYEGRAV I TSDRD SKYG
Sbjct: 62 KRCKEKLNVLAYSVMNEWPGIRLLVTESWDEDYHHGQESLHYEGRAVTIATSDRDQSKYG 121
Query: 76 LLARMAVEAGFDWVYYESRNHIHCSVKTE 104
+LAR+AVEAGFDWV Y SR HI+CSVK++
Sbjct: 122 MLARLAVEAGFDWVSYVSRRHIYCSVKSD 150
>3k7i_B IHH, HHG-2, indian hedgehog protein; alpha+beta sandwich,
autocatalytic cleavage, cell membrane, developmental
protein, disease mutation; 1.44A {Homo sapiens} PDB:
3k7g_B 3k7j_B 3k7h_B 3n1f_A 3n1m_B 3n1o_A 3n1p_B 3m1n_A
3mxw_A 3ho5_H 1vhh_A 3d1m_A 3n1r_A 2wg4_A 2wfx_A 2wfq_A
2wfr_A 2wg3_A*
Length = 187
Score = 161 bits (409), Expect = 3e-50
Identities = 71/97 (73%), Positives = 86/97 (88%)
Query: 16 QRLKEKLNTLAISVMNEWPGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYG 75
QR K++LN+LAISVMN+WPGV+LRV +GWDE+GHH+ +SLHYEGRAVDITTSDRD +KYG
Sbjct: 90 QRCKDRLNSLAISVMNQWPGVKLRVTKGWDEDGHHSEESLHYEGRAVDITTSDRDRNKYG 149
Query: 76 LLARMAVEAGFDWVYYESRNHIHCSVKTETTHVNGKG 112
LLAR+AVEAGFDWVYYES+ H+HCSVK+E + G
Sbjct: 150 LLARLAVEAGFDWVYYESKAHVHCSVKSEHSAAAKTG 186
>1at0_A 17-hedgehog; developmental signaling molecule, cholesterol
transfer, signaling protein; 1.90A {Drosophila
melanogaster} SCOP: b.86.1.1
Length = 145
Score = 95.1 bits (236), Expect = 7e-25
Identities = 36/122 (29%), Positives = 68/122 (55%), Gaps = 6/122 (4%)
Query: 115 CFTGDSTVTLDNHKTINITDLNIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVHNFVQIT 174
CFT +ST L++ + +L+IGD+VL++ G+ YSEV+LF+ R+ + NFVQ+
Sbjct: 1 CFTPESTALLESGVRKPLGELSIGDRVLSMTA-NGQAVYSEVILFMDRNLEQMQNFVQLH 59
Query: 175 TESGSLIKMTPSHLILRWHRPNAKSILNDIEYTYAERVRVNDSIIVHKNGKARNGIQRGA 234
T+ G+++ +TP+HL+ W + + + +A+R+ + ++V QR
Sbjct: 60 TDGGAVLTVTPAHLVSVWQPES-----QKLTFVFADRIEEKNQVLVRDVETGELRPQRVV 114
Query: 235 PI 236
+
Sbjct: 115 KV 116
>1mi8_A DNAB intein; all beta-strands, hydrolase; 2.00A {Synechocystis SP}
SCOP: b.86.1.2
Length = 158
Score = 56.8 bits (136), Expect = 2e-10
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 6/85 (7%)
Query: 114 GCFTGDSTVTL-DNHKTINITDL--NIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVHNF 170
G +GDS ++L K ++I DL ++ +N T ++E ++V LV
Sbjct: 2 GAISGDSLISLASTGKRVSIKDLLDEKDFEIWAINEQTMKLESAKVSRVFMTGKKLV--- 58
Query: 171 VQITTESGSLIKMTPSHLILRWHRP 195
+ T G IK T +H L
Sbjct: 59 YILKTRLGRTIKATANHRFLTIDGW 83
>2jmz_A Hypothetical protein MJ0781; unknown function; NMR
{Methanocaldococcus jannaschii} PDB: 2jnq_A
Length = 186
Score = 52.1 bits (124), Expect = 1e-08
Identities = 24/136 (17%), Positives = 45/136 (33%), Gaps = 34/136 (25%)
Query: 114 GCFTGDSTVTLDNHKTINITDL-------------------------NIGDKVLTLNTIT 148
G D + L + INI + N + + N ++
Sbjct: 7 GALAYDEPIYLSDGNIINIGEFVDKFFKKYKNSIKKEDNGFGWIDIGNENIYIKSFNKLS 66
Query: 149 GEMEYSEVLLFLHRDPNLVHNFVQITTESGSLIKMTPSHLILRWHRPNAKSILNDIEYTY 208
+E +L + + ++ITT++ I +T H + ++
Sbjct: 67 LIIEDKRILRVWRKKYS--GKLIKITTKNRREITLTHDHPVYISKT-------GEVLEIN 117
Query: 209 AERVRVNDSIIVHKNG 224
AE V+V D I + KN
Sbjct: 118 AEMVKVGDYIYIPKNN 133
>2lcj_A PAB POLC intein; hydrolase; NMR {Pyrococcus abyssi}
Length = 185
Score = 51.7 bits (123), Expect = 2e-08
Identities = 19/133 (14%), Positives = 45/133 (33%), Gaps = 33/133 (24%)
Query: 115 CFTGDSTVTLDN---HKTINITDL-------------------NIGDKVLTLNTITGEME 152
CF GD+ + + + I + +L KV +++ TG++
Sbjct: 1 CFPGDTRILVQIDGVPQKITLRELYELFEDERYENMVYVRKKPKREIKVYSIDLETGKVV 60
Query: 153 YSEVL-LFLHRDPNLVHNFVQITTESGSLIKMTPSHLILRWHRPNAKSILNDIEYTYAER 211
+++ + + + ++ E G + T H +L + A
Sbjct: 61 LTDIEDVIKAPATD---HLIRFELEDGRSFETTVDHPVLVYEN-------GRFIEKRAFE 110
Query: 212 VRVNDSIIVHKNG 224
V+ D ++V +
Sbjct: 111 VKEGDKVLVSELE 123
>2keq_A DNA polymerase III alpha subunit, nucleic acid binding OB-fold
tRNA/helicase-type...; intein, DNAE intein, protein
splicing; HET: DNA; NMR {Nostoc punctiforme pcc 73102}
Length = 139
Score = 47.7 bits (113), Expect = 3e-07
Identities = 17/118 (14%), Positives = 38/118 (32%), Gaps = 10/118 (8%)
Query: 113 AGCFTGDSTVTLDNHKTINITDL---NIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVHN 169
G + ++ + + + I + I V +++ G + V + R V
Sbjct: 1 GGALSYETEILTVEYGLLPIGKIVEKRIECTVYSVDN-NGNIYTQPVAQWHDRGEQEV-- 57
Query: 170 FVQITTESGSLIKMTPSHLILR---WHRPNAKSILNDIEYTYAERVRVNDSIIVHKNG 224
+ E GSLI+ T H + P + +++ + + G
Sbjct: 58 -FEYCLEDGSLIRATKDHKFMTVDGQMLPIDEIFERELDLMRVDNLPNIKIATRKYLG 114
>2in0_A Endonuclease PI-MTUI; hydrolase; 1.60A {Mycobacterium tuberculosis}
PDB: 2l8l_A 2in9_A 2in8_A 3ifj_A 3igd_A
Length = 139
Score = 46.5 bits (110), Expect = 6e-07
Identities = 13/79 (16%), Positives = 29/79 (36%), Gaps = 6/79 (7%)
Query: 115 CFTGDSTV-TLDNHKTINITDLNIGDKVLTLNTI--TGEMEYSEVLLFLHRDPNLVHNFV 171
C + + T I D+ G K + + G + V+ + + + +
Sbjct: 1 CLAEGTRIFDPVTGTTHRIEDVVDGRKPIHVVAAAKDGTLHARPVVSWFDQGT---RDVI 57
Query: 172 QITTESGSLIKMTPSHLIL 190
+ G+++ TP H +L
Sbjct: 58 GLRIAGGAILWATPDHKVL 76
>2imz_A Endonuclease PI-MTUI; N-terminal cysteine sulfinic acid C-terminal
aminosuccinimide, hydrolase; 1.70A {Mycobacterium
tuberculosis}
Length = 168
Score = 44.4 bits (104), Expect = 5e-06
Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 6/82 (7%)
Query: 115 CFTGDSTV-TLDNHKTINITDLNIGDKVLTLNTI--TGEMEYSEVLLFLHRDPNLVHNFV 171
C + + T I D+ G K + + G + V+ + + V +
Sbjct: 1 CLAEGTRIFDPVTGTTHRIEDVVDGRKPIHVVAAAKDGTLHARPVVSWFDQGTRDV---I 57
Query: 172 QITTESGSLIKMTPSHLILRWH 193
+ G+++ TP H +L +
Sbjct: 58 GLRIAGGAILWATPDHKVLTEY 79
>3nzm_A SSP DNAE intein, DNA polymerase III subunit alpha; disulfide bond,
transferase; HET: DNA; 1.55A {Synechocystis SP} PDB:
1zd7_A* 1zde_A*
Length = 168
Score = 43.2 bits (101), Expect = 1e-05
Identities = 15/80 (18%), Positives = 30/80 (37%), Gaps = 7/80 (8%)
Query: 114 GCFTGDSTVTLDNHKTINITDL---NIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVHNF 170
GC + + + + + I + I V +++ G + + + R V
Sbjct: 9 GCLSFGTEILTVEYGPLPIGKIVSEEINCSVYSVDP-EGRVYTQAIAQWHDRGEQEVL-- 65
Query: 171 VQITTESGSLIKMTPSHLIL 190
+ E GS+I+ T H L
Sbjct: 66 -EYELEDGSVIRATSDHRFL 84
>4e2u_A PHO RADA intein; HINT-fold, unknown function; 1.58A {Pyrococcus
horikoshii} PDB: 2lqm_A 4e2t_A*
Length = 168
Score = 43.2 bits (101), Expect = 1e-05
Identities = 18/101 (17%), Positives = 34/101 (33%), Gaps = 26/101 (25%)
Query: 115 CFTGDSTVTLDNHKTINITDL-----------------------NIGDKVLTLNTITGEM 151
F D+ V +N ++ + V TL+ +GE+
Sbjct: 5 AFARDTEVYYENDTVPHMESIEEMYSKYASMNGELPFDNGYAVPLDNVFVYTLDIASGEI 64
Query: 152 EYSEVLLFLHRDPNLVHNFVQITTESGSLIKMTPSHLILRW 192
+ + ++I SG +K+TPSH +L +
Sbjct: 65 KKTRASYIYREKVE---KLIEIKLSSGYSLKVTPSHPVLLF 102
>1am2_A MXE GYRA intein; protein splicing; 2.20A {Mycobacterium xenopi}
SCOP: b.86.1.2
Length = 199
Score = 40.4 bits (93), Expect = 2e-04
Identities = 19/129 (14%), Positives = 41/129 (31%), Gaps = 11/129 (8%)
Query: 114 GCFTGDSTVTLDNHKTINITDL-----NIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVH 168
TGD+ V L +++ I D+ D + L + H + V
Sbjct: 1 ASITGDALVALPEGESVRIADIVPGARPNSDNAIDLKVLDRHGNPVLADRLFHSGEHPV- 59
Query: 169 NFVQITTESGSLIKMTPSHLILRWHRPNAKSILNDIEYTYAERVRVNDSIIVHKNGKARN 228
+ T G + T +H +L L + + ++ D ++ ++ + +
Sbjct: 60 --YAVRTVEGLRVTGTANHPLLCLVDVAGVPTL---LWKLIDEIKPGDYAVIQRSAFSVD 114
Query: 229 GIQRGAPIP 237
P
Sbjct: 115 CAGFARGKP 123
>1oa8_A Ataxin-1; RNA binding, high mobility group homology, HMG,
RNA-binding, dimerization; 1.7A {Homo sapiens} SCOP:
b.145.1.1
Length = 133
Score = 36.3 bits (83), Expect = 0.002
Identities = 9/76 (11%), Positives = 22/76 (28%), Gaps = 3/76 (3%)
Query: 115 CFTGDSTVTLDNHKTINITDLNIGDKVLTLNTITGEMEYSEVLLFLHRDPNLVHNFVQIT 174
F S + L N + + DL D + + S + + + +Q
Sbjct: 13 YFMKGSIIQLANGELKKVEDLKTEDFIQSAEISNDLKIDSSTVERIEDSHSPGVAVIQFA 72
Query: 175 TESG---SLIKMTPSH 187
+++ +
Sbjct: 73 VGEHRAQVSVEVLVEY 88
>1dq3_A Endonuclease; PI-PFUI, intein-encoded, hydrolase; 2.10A {Pyrococcus
furiosus} SCOP: b.86.1.2 d.50.3.1 d.95.2.2 d.95.2.2
Length = 454
Score = 37.0 bits (84), Expect = 0.004
Identities = 12/106 (11%), Positives = 30/106 (28%), Gaps = 26/106 (24%)
Query: 115 CFTGDSTVTLDNHKTIN---ITDL-----------------------NIGDKVLTLNTIT 148
C G + + +N + + ++ N+ V + + +
Sbjct: 1 CIDGKAKIIFENEGEEHLTTMEEMYERYKHLGEFYDEEYNRWGIDVSNVPIYVKSFDPES 60
Query: 149 GEMEYSEVLLFLHRDPNLVHNFVQITTESGSLIKMTPSHLILRWHR 194
+ +V + + +I T G+ I +P H
Sbjct: 61 KRVVKGKVNVIWKYELGKDVTKYEIITNKGTKILTSPWHPFFVLTP 106
>1gpp_A Endonuclease PI-SCEI; homing, protein splicing; 1.35A
{Saccharomyces cerevisiae} SCOP: b.86.1.2
Length = 237
Score = 34.4 bits (78), Expect = 0.018
Identities = 8/35 (22%), Positives = 18/35 (51%)
Query: 109 NGKGAGCFTGDSTVTLDNHKTINITDLNIGDKVLT 143
+ G+ CF + V + + I ++ +G+KV+
Sbjct: 5 HHHGSACFAKGTNVLMADGSIECIENIEVGNKVMG 39
>2cw8_A Endonuclease PI-pkoii; hydrolase; 2.50A {Thermococcus kodakarensis}
PDB: 2cw7_A
Length = 537
Score = 34.9 bits (78), Expect = 0.022
Identities = 16/86 (18%), Positives = 31/86 (36%), Gaps = 9/86 (10%)
Query: 138 GDKVLTLNTITGEMEYSEVLLFLHRDPNLVHNFVQITTESGSLIKMTPSHLILRWHRPNA 197
G +V + N T + E V + D + I +SG IK+T H +
Sbjct: 49 GLEVPSFNRRTNKAELKRVKALIRHDYS--GKVYTIRLKSGRRIKITSGHSLFSVRN--- 103
Query: 198 KSILNDIEYTYAERVRVNDSIIVHKN 223
++ + ++ D + V +
Sbjct: 104 ----GELVEVTGDELKPGDLVAVPRR 125
>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 = 34.4 bits (78), Expect = 0.030
Identities = 29/187 (15%), Positives = 55/187 (29%), Gaps = 42/187 (22%)
Query: 55 LHYEGRAVDITTSDRDSSKYG-LLARMAVE----AGFDWVYYESRNHIHCSVKTETTH-- 107
L + V + Y L++ + E + +Y E R+ ++ + +
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131
Query: 108 -----------------------VNGKGAGCFTGDSTVTLDNHKTINITDLNIGDKV--L 142
++G G G + V LD + + + K+ L
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVL-GS--GKTWVALDVCLSYKVQC-KMDFKIFWL 187
Query: 143 TLNTITGEMEYSEVL--LFLHRDPNL---VHNFVQITTESGSLIKMTPSHLILRWHRPNA 197
L E+L L DPN + I S I+ L+ N
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS-IQAELRRLLKSKPYENC 246
Query: 198 KSILNDI 204
+L ++
Sbjct: 247 LLVLLNV 253
Score = 34.1 bits (77), Expect = 0.045
Identities = 25/131 (19%), Positives = 43/131 (32%), Gaps = 32/131 (24%)
Query: 144 LNTITGEMEYSEVLLFLHRDPNLVHNF----VQ------ITTESGSLIKMTPSH----LI 189
++ TGE +Y + + V NF VQ ++ E I M+ L
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 190 LRW-----------------HRPNAKSILNDIEYTYAERVRVNDSIIVHKNGKARNGIQR 232
L W R N K +++ I+ + + I ++ + N Q
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQV 125
Query: 233 GAPIPPPRPKP 243
A R +P
Sbjct: 126 FAKYNVSRLQP 136
Score = 32.5 bits (73), Expect = 0.13
Identities = 22/144 (15%), Positives = 49/144 (34%), Gaps = 45/144 (31%)
Query: 48 GHHASDSLHYEGRAVDITTSDRDSSKYGLLARMAVEAGFDWVYYESRNHIHCSVKTETTH 107
GHH + H E + L + ++ F ++ E + ++ ++T
Sbjct: 478 GHHLKNIEHPE--------------RMTLFRMVFLD--FRFL--EQK------IRHDSTA 513
Query: 108 VNGKGAGCFTGDSTVTLDNHKTINITDLNIGDKVLTLNTITGEMEYSEVLLFLHR-DPNL 166
N G+ L+ + L + N E + +L FL + + NL
Sbjct: 514 WNASGS---------ILNT-----LQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Query: 167 VH----NFVQIT--TESGSLIKMT 184
+ + ++I E ++ +
Sbjct: 560 ICSKYTDLLRIALMAEDEAIFEEA 583
>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 = 0.59
Identities = 38/236 (16%), Positives = 79/236 (33%), Gaps = 74/236 (31%)
Query: 22 LNTLAISVMNEWPGVRL----------RVIEGWDEE---GHHASDSLHYEG--RAVDITT 66
L ++ IS P + + +++ G+ + + H +G AV I
Sbjct: 231 LLSIPIS----CPLIGVIQLAHYVVTAKLL-GFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 67 SDRDSSKYGLLARMAVEAGFDWVYYES-RNHIHCSVK---TETTHVNGKGAGCF----TG 118
+D S + R A+ F ++ + + S+ E + N +G +
Sbjct: 286 TDSWESFFVS-VRKAITVLF-FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343
Query: 119 DSTVTLDNH-----------KTINITDLNIGDK--VLT--------LNT------ITGEM 151
+ + ++ K + I+ +N G K V++ LN +
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVN-GAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 152 EYSEVLLFLHRDPNLVHNFVQITTESGSLIKMTP--SHLILRWHRPNAKSILNDIE 205
+ S + F R + F+ + +P SHL+ P + I D+
Sbjct: 403 DQSRIP-FSERKLKFSNRFLPVA---------SPFHSHLL----VPASDLINKDLV 444
Score = 27.3 bits (60), Expect = 6.6
Identities = 21/127 (16%), Positives = 36/127 (28%), Gaps = 43/127 (33%)
Query: 24 TLAISVMNEWPGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYGLLAR---- 79
L + + + +L+ E + EG A D D ++ L+ +
Sbjct: 19 VLLVPTASFFIASQLQ-------EQFNKILPEPTEGFAAD----DEPTTPAELVGKFLGY 67
Query: 80 --MAVEAG----FDWV------YYESR----NHIHCSVKTETTHVNGKGAGCFTGDSTVT 123
VE FD V +E+ N IH ++ T
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK------------LLQENDTT 115
Query: 124 LDNHKTI 130
L K +
Sbjct: 116 LVKTKEL 122
>3l5l_A Xenobiotic reductase A; TIM barrel, oxidoreductase; HET: BU3 FMN;
1.03A {Pseudomonas putida} PDB: 3l5m_A* 3n19_B* 3n16_A*
3l68_A* 3l67_A* 3l65_A* 3l66_A* 3n14_A* 2h8z_A* 2h90_A*
2h8x_A*
Length = 363
Score = 29.8 bits (68), Expect = 0.79
Identities = 9/22 (40%), Positives = 13/22 (59%), Gaps = 6/22 (27%)
Query: 78 ARMAVEAGFDWVYYESRNHIHC 99
AR A +AGF+W+ E +H
Sbjct: 164 ARRARDAGFEWI--E----LHF 179
>3hgj_A Chromate reductase; TIM barrel, oxidoreductase; HET: FMN; 2.00A
{Thermus scotoductus} PDB: 3hf3_A*
Length = 349
Score = 29.4 bits (67), Expect = 1.0
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 6/22 (27%)
Query: 78 ARMAVEAGFDWVYYESRNHIHC 99
AR A+ AGF + E +H
Sbjct: 158 ARRALRAGFQVI--E----LHM 173
>3kru_A NADH:flavin oxidoreductase/NADH oxidase; homotetramer, dimer of
dimers, TIM barrel, thermophilic, OLD enzyme; HET: FMN;
1.60A {Thermoanaerobacter pseudethanolicus AT} PDB:
3krz_A*
Length = 343
Score = 29.4 bits (67), Expect = 1.1
Identities = 9/22 (40%), Positives = 11/22 (50%), Gaps = 6/22 (27%)
Query: 78 ARMAVEAGFDWVYYESRNHIHC 99
A+ A AG+D V E IH
Sbjct: 149 AKRANLAGYDVV--E----IHA 164
>1z41_A YQJM, probable NADH-dependent flavin oxidoreductase YQJ; FMN,
beta-alpha-barrel; HET: FMN; 1.30A {Bacillus subtilis}
SCOP: c.1.4.1 PDB: 1z42_A* 1z44_A* 1z48_A*
Length = 338
Score = 29.0 bits (66), Expect = 1.2
Identities = 10/22 (45%), Positives = 11/22 (50%), Gaps = 6/22 (27%)
Query: 78 ARMAVEAGFDWVYYESRNHIHC 99
A A EAGFD + E IH
Sbjct: 150 AARAKEAGFDVI--E----IHA 165
>3gr7_A NADPH dehydrogenase; flavin, FMN, beta-alpha-barrel,
oxidoreductase, flavoprotein; HET: FMN; 2.30A
{Geobacillus kaustophilus} PDB: 3gr8_A*
Length = 340
Score = 29.0 bits (66), Expect = 1.2
Identities = 11/22 (50%), Positives = 12/22 (54%), Gaps = 6/22 (27%)
Query: 78 ARMAVEAGFDWVYYESRNHIHC 99
AR A EAGFD + E IH
Sbjct: 150 ARRAKEAGFDVI--E----IHA 165
>1dfa_A PI-SCEI endonuclease; intein, homing endonuclease, hydrolase; 2.00A
{Saccharomyces cerevisiae} SCOP: b.86.1.2 d.95.2.2
d.95.2.2 PDB: 1lws_A 1lwt_A 1vde_A 1ef0_A 1um2_A 1jva_A
Length = 454
Score = 28.6 bits (62), Expect = 1.9
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 115 CFTGDSTVTLDNHKTINITDLNIGDKVLT 143
CF + V + + I ++ +G+KV+
Sbjct: 1 CFAKGTNVLMADGSIECIENIEVGNKVMG 29
>3cxe_C Granulocyte-macrophage colony-stimulating factor subunit alpha;
GM-CSF, receptor complex, dodecamer, disease mutation,
glyco membrane; HET: NAG BMA; 3.30A {Homo sapiens}
Length = 120
Score = 27.4 bits (60), Expect = 2.2
Identities = 7/36 (19%), Positives = 18/36 (50%)
Query: 182 KMTPSHLILRWHRPNAKSILNDIEYTYAERVRVNDS 217
+ +H ++RW +P L+ +++ Y V ++
Sbjct: 27 RCNTTHCLVRWKQPRTYQKLSYLDFQYQLDVHRKNT 62
>3e1t_A Halogenase; flavoprotein; HET: FAD; 2.05A {Chondromyces crocatus}
Length = 512
Score = 27.6 bits (61), Expect = 4.7
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 34 PGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYGLLARMAVEA 84
GV +R E H D L RAV + + + + AR V+A
Sbjct: 124 KGVDVR-------ERHEVIDVLFEGERAVGVRYRNTEGVELMAHARFIVDA 167
>1o94_A Tmadh, trimethylamine dehydrogenase; electron transport, protein
complex; HET: FMN ADP AMP; 2.0A {Methylophilus
methylotrophus} SCOP: c.1.4.1 c.3.1.1 c.4.1.1 PDB:
1djn_A* 1o95_A* 2tmd_A* 1djq_A*
Length = 729
Score = 27.3 bits (61), Expect = 5.2
Identities = 8/28 (28%), Positives = 14/28 (50%), Gaps = 6/28 (21%)
Query: 73 KYGLLARMAVEAGFDWVYYESRNHIHCS 100
Y A+ + +AGFD VY ++ +
Sbjct: 150 FYVDAAKRSRDAGFDIVY------VYGA 171
>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP;
1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D*
1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D*
2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...
Length = 482
Score = 27.2 bits (61), Expect = 5.8
Identities = 8/11 (72%), Positives = 8/11 (72%)
Query: 30 MNEWPGVRLRV 40
MNE PG R RV
Sbjct: 226 MNEPPGARARV 236
>3sze_A Serine protease ESPP; parallel beta-helix, hydrolase; 2.50A
{Escherichia coli O157}
Length = 968
Score = 27.3 bits (59), Expect = 6.2
Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 105 TTHVNGKGAGCF-TGDSTVTLDNHKTINITDLNIGDKVLTLN 145
T V TG+ V L KT N + GD + LN
Sbjct: 362 TLDVRKTQNTNLKTGEGLVILGAEKTFNNIYITSGDGTVRLN 403
>3k30_A Histamine dehydrogenase; 6-S-cysteinyl-FMN, ADP binding site,
oxidoreductase; HET: FMN ADP; 2.70A {Pimelobacter
simplex}
Length = 690
Score = 26.9 bits (60), Expect = 6.8
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 6/28 (21%)
Query: 73 KYGLLARMAVEAGFDWVYYESRNHIHCS 100
+ R ++EAG+D VY ++ +
Sbjct: 157 WHRNAVRRSIEAGYDIVY------VYGA 178
>1zlp_A PSR132, petal death protein; TIM-barrel, helix
swapping,2-ethyl-3-methylmalate lyase, 2-P methylmalate
lyase, lyase/PEP mutase superfamily; 2.70A {Dianthus
caryophyllus}
Length = 318
Score = 26.9 bits (60), Expect = 7.2
Identities = 4/16 (25%), Positives = 7/16 (43%)
Query: 75 GLLARMAVEAGFDWVY 90
L A + + GF +
Sbjct: 49 ALSAAVVEKTGFHAAF 64
>3fa4_A 2,3-dimethylmalate lyase; alpha/beta barrel, helix swapping;
2.18A {Aspergillus niger} PDB: 3fa3_A
Length = 302
Score = 26.5 bits (59), Expect = 7.3
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 75 GLLARMAVEAGFDWVY 90
GL AR+A+ AGFD +Y
Sbjct: 28 GLSARVALSAGFDALY 43
>3rfq_A Pterin-4-alpha-carbinolamine dehydratase MOAB2; structural
genomics, seattle structural genomics center for
infectious disease, ssgcid; HET: B3P; 2.25A
{Mycobacterium marinum} PDB: 3tcr_A
Length = 185
Score = 26.5 bits (59), Expect = 7.7
Identities = 14/68 (20%), Positives = 23/68 (33%), Gaps = 9/68 (13%)
Query: 34 PGVRLRVIEGWDEEGH----HASDSLHYEGRAVDITTSDRDSSKY----G-LLARMAVEA 84
PG + + G+ + GRA+ + DR + G L+ + EA
Sbjct: 2 PGSMVNADAQLSDLGYSVAPMEQGAELVVGRALVVVVDDRTAHGDEDHSGPLVTELLTEA 61
Query: 85 GFDWVYYE 92
GF
Sbjct: 62 GFVVDGVV 69
>1xg4_A Probable methylisocitrate lyase; 2-methylisocitrate
lyase/inhibitor complex, isocitrate lyase superfamily;
HET: ICT; 1.60A {Escherichia coli} PDB: 1xg3_A* 1mum_A
1oqf_A 1ujq_A 1o5q_A
Length = 295
Score = 26.5 bits (59), Expect = 7.9
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 75 GLLARMAVEAGFDWVY 90
A +A AG+ +Y
Sbjct: 27 ANHALLAQRAGYQAIY 42
>3b8i_A PA4872 oxaloacetate decarboxylase; alpha/beta barrel, helix
swapping, lyase; 1.90A {Pseudomonas aeruginosa}
Length = 287
Score = 26.5 bits (59), Expect = 8.0
Identities = 5/16 (31%), Positives = 9/16 (56%)
Query: 75 GLLARMAVEAGFDWVY 90
+ AR+A + GF+
Sbjct: 31 PMSARIAADLGFECGI 46
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*
Length = 498
Score = 26.9 bits (60), Expect = 8.0
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 30 MNEWPGVRLRV 40
MNE PG R+RV
Sbjct: 239 MNEPPGARMRV 249
>1vl5_A Unknown conserved protein BH2331; putative methyltransferase,
structural genomics, joint cente structural genomics,
JCSG; HET: MSE; 1.95A {Bacillus halodurans} SCOP:
c.66.1.41
Length = 260
Score = 26.3 bits (58), Expect = 8.8
Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 12/65 (18%)
Query: 34 PGVRLRVIEGWDEEGHHASDSLHYEGRAVDITTSDRDSSKYGL-----LARMAVEAGFDW 88
G +L +++ +D+ + +RD S + +M EAGF+
Sbjct: 132 KGGQLLLVDNS----APENDAF---DVFYNYVEKERDYSHHRAWKKSDWLKMLEEAGFEL 184
Query: 89 VYYES 93
Sbjct: 185 EELHC 189
>3eoo_A Methylisocitrate lyase; seattle structural genomics center for
infectious disease, ssgcid; 2.90A {Burkholderia
pseudomallei 1655}
Length = 298
Score = 26.5 bits (59), Expect = 8.9
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 75 GLLARMAVEAGFDWVY 90
A+MA GF VY
Sbjct: 32 AYAAKMAEAVGFKAVY 47
>3ih1_A Methylisocitrate lyase; alpha-beta structure, TIM-barrel, center
for structural GENO infectious diseases, csgid; 2.00A
{Bacillus anthracis str} PDB: 3kz2_A
Length = 305
Score = 26.5 bits (59), Expect = 9.2
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 75 GLLARMAVEAGFDWVY 90
+ A +A GF +Y
Sbjct: 39 AMAALVARNTGFLALY 54
>3l5a_A NADH/flavin oxidoreductase/NADH oxidase; OLD yellow enzyme family,
OYE-like FMN-binding domain, TIM B oxidoreductase; HET:
PGE; 1.65A {Staphylococcus aureus}
Length = 419
Score = 26.5 bits (59), Expect = 9.4
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 73 KYGLLARMAVEAGFDWV 89
+Y A++AGFD V
Sbjct: 171 QYRDATLRAIKAGFDGV 187
>3lye_A Oxaloacetate acetyl hydrolase; (alpha/beta)8 barrel; 1.30A
{Cryphonectria parasitica} PDB: 3m0j_A* 3m0k_A
Length = 307
Score = 26.5 bits (59), Expect = 9.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 75 GLLARMAVEAGFDWVY 90
GL AR A+E GF +Y
Sbjct: 35 GLSARTAMELGFKSLY 50
>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC
F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1
b.49.1.1 c.37.1.11
Length = 473
Score = 26.5 bits (59), Expect = 9.7
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 30 MNEWPGVRLRV 40
MNE PG R+RV
Sbjct: 218 MNEPPGARMRV 228
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 0.136 0.416
Gapped
Lambda K H
0.267 0.0509 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,820,769
Number of extensions: 224143
Number of successful extensions: 651
Number of sequences better than 10.0: 1
Number of HSP's gapped: 636
Number of HSP's successfully gapped: 59
Length of query: 245
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 154
Effective length of database: 4,160,982
Effective search space: 640791228
Effective search space used: 640791228
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: 56 (25.9 bits)