RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15126
(300 letters)
>1pv8_A Delta-aminolevulinic acid dehydratase; porphobilinogen synthase,
tetrapyrrole biosynthesis, reactio intermediate, lyase;
HET: PB1; 2.20A {Homo sapiens} SCOP: c.1.10.3 PDB:
1e51_A* 2z0i_A 2z1b_A
Length = 330
Score = 357 bits (918), Expect = e-124
Identities = 138/298 (46%), Positives = 186/298 (62%), Gaps = 52/298 (17%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNEDGSIHYE 61
+DE S AD+ ++P + I ++RK FP+L +ACDVCLC YTSHGHC + +E+G+ E
Sbjct: 85 VPKDERGSAADSEESPAIEAIHLLRKTFPNLLVACDVCLCPYTSHGHCGLLSENGAFRAE 144
Query: 62 KTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSLFTSRQSSTTGLLSYSAKFCSAF 121
++ +RLA+++ A++ AG +VAPSDMMD R+ AIK++L + ++SYSAKF S F
Sbjct: 145 ESRQRLAEVALAYAKAGCQVVAPSDMMDGRVEAIKEALMAHGLGNRVSVMSYSAKFASCF 204
Query: 122 YGPFREAAGSAPTFGDRSCYQLPCGSKGLAIRAAVCLCGYTSHGHCAIFNEDGSIHYEKT 181
YGPFR+AA S+P FGDR CYQLP G++GLA+RA
Sbjct: 205 YGPFRDAAKSSPAFGDRRCYQLPPGARGLALRAV-------------------------- 238
Query: 182 LKRLADISKAFSDAVYVPNHNTDRFQARDVSQGADFLMVKPALPYLDIISEVKSRHPAYP 241
RDV +GAD LMVKP +PYLDI+ EVK +HP P
Sbjct: 239 --------------------------DRDVREGADMLMVKPGMPYLDIVREVKDKHPDLP 272
Query: 242 LFVYQVSGEYAMLAFAAQAGALDLKRALMETLTCLRRGGADVIISYYTPRVLEWLRED 299
L VY VSGE+AML AQAGA DLK A++E +T RR GAD+II+YYTP++L+WL+E+
Sbjct: 273 LAVYHVSGEFAMLWHGAQAGAFDLKAAVLEAMTAFRRAGADIIITYYTPQLLQWLKEE 330
>1h7n_A 5-aminolaevulinic acid dehydratase; lyase, aldolase, TIM barrel,
tetrapyrrole synthesis; HET: SHF; 1.6A {Saccharomyces
cerevisiae} SCOP: c.1.10.3 PDB: 1h7p_A* 1h7r_A* 1ohl_A*
1qml_A 1qnv_A 1w31_A* 1h7o_A* 1eb3_A* 1gjp_A* 1ylv_A*
1aw5_A
Length = 342
Score = 355 bits (914), Expect = e-123
Identities = 120/298 (40%), Positives = 159/298 (53%), Gaps = 52/298 (17%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNEDGSIHYE 61
+D + AD P P+ Q I IR+ FP L I CDVCLC YTSHGHC + +DG+I+ E
Sbjct: 96 GTKDPVGTAADDPAGPVIQGIKFIREYFPELYIICDVCLCEYTSHGHCGVLYDDGTINRE 155
Query: 62 KTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSLFTSRQSSTTGLLSYSAKFCSAF 121
+++ RLA ++ ++ AGAH VAPSDM+D RI IK+ L + + T +LSY+AKF
Sbjct: 156 RSVSRLAAVAVNYAKAGAHCVAPSDMIDGRIRDIKRGLINANLAHKTFVLSYAAKFSGNL 215
Query: 122 YGPFREAAGSAPTFGDRSCYQLPCGSKGLAIRAAVCLCGYTSHGHCAIFNEDGSIHYEKT 181
YGPFR+AA SAP+ GDR CYQLP +GLA RA
Sbjct: 216 YGPFRDAACSAPSNGDRKCYQLPPAGRGLARRAL-------------------------- 249
Query: 182 LKRLADISKAFSDAVYVPNHNTDRFQARDVSQGADFLMVKPALPYLDIISEVKSRHPAYP 241
RD+S+GAD ++VKP+ YLDI+ + P
Sbjct: 250 --------------------------ERDMSEGADGIIVKPSTFYLDIMRDASEICKDLP 283
Query: 242 LFVYQVSGEYAMLAFAAQAGALDLKRALMETLTCLRRGGADVIISYYTPRVLEWLRED 299
+ Y VSGEYAML AA+ G +DLK E+ R GA +II+Y P L+WL E+
Sbjct: 284 ICAYHVSGEYAMLHAAAEKGVVDLKTIAFESHQGFLRAGARLIITYLAPEFLDWLDEE 341
>1w1z_A Delta-aminolevulinic acid dehydratase; synthase, tetrapyrrole
biosynthesis, ALAD, porphyrin biosynt heme biosynthesis,
lyase; 2.6A {Prosthecochloris vibrioformis} SCOP:
c.1.10.3 PDB: 2c1h_A*
Length = 328
Score = 178 bits (453), Expect = 4e-54
Identities = 60/145 (41%), Positives = 87/145 (60%), Gaps = 10/145 (6%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNEDGSIHYE 61
+ + E S A + L Q I I+K P L I DV L +T GH + +DG I +
Sbjct: 88 EQKTEDGSEAYNDNGILQQAIRAIKKAVPELCIMTDVALDPFTPFGHDGLV-KDGIILND 146
Query: 62 KTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSL----FTSRQSSTTGLLSYSAKF 117
+T++ L ++ + ++AGA V+PSDMMD RI AI+++L + G+LSY+AK+
Sbjct: 147 ETVEVLQKMAVSHAEAGADFVSPSDMMDGRIGAIREALDETDHSD-----VGILSYAAKY 201
Query: 118 CSAFYGPFREAAGSAPTFGDRSCYQ 142
S+FYGPFR+A SAP FGD+S YQ
Sbjct: 202 ASSFYGPFRDALHSAPQFGDKSTYQ 226
Score = 146 bits (371), Expect = 5e-42
Identities = 42/90 (46%), Positives = 57/90 (63%), Gaps = 1/90 (1%)
Query: 208 ARDVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGALDLKR 267
D+ +GAD +MVKP L YLDI+ K R P+ +Y VSGEYAM+ AA G +D R
Sbjct: 240 ELDIVEGADIVMVKPGLAYLDIVWRTKERFDV-PVAIYHVSGEYAMVKAAAAKGWIDEDR 298
Query: 268 ALMETLTCLRRGGADVIISYYTPRVLEWLR 297
+ME+L C++R GAD+I +YY + LR
Sbjct: 299 VMMESLLCMKRAGADIIFTYYAKEAAKKLR 328
Score = 42.9 bits (102), Expect = 6e-05
Identities = 10/34 (29%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 156 VCLCGYTSHGHCAIFNEDGSIHYEKTLKRLADIS 189
V L +T GH + +DG I ++T++ L ++
Sbjct: 124 VALDPFTPFGHDGLV-KDGIILNDETVEVLQKMA 156
>1w5q_A Delta-aminolevulinic acid dehydratase; synthase, evolution,
metalloenzyme, porphobilinogen synthase, protein
engineering,; 1.4A {Pseudomonas aeruginosa} PDB: 1w5p_A*
1w5o_A 1w5n_A 1w56_A 1w5m_A 1w54_A 1gzg_A* 1b4k_A
2woq_A* 2c14_A* 2c16_A* 2c19_A* 2c15_A* 2c18_A* 2c13_A*
Length = 337
Score = 177 bits (451), Expect = 9e-54
Identities = 57/147 (38%), Positives = 90/147 (61%), Gaps = 11/147 (7%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNEDGSIHYE 61
+ + A+ A P+ + +R++FP L I DVCLC +T+HG C I ++DG + +
Sbjct: 92 EKKSLDAAEAYNPEGIAQRATRALRERFPELGIITDVCLCEFTTHGQCGILDDDGYVLND 151
Query: 62 KTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSL----FTSRQSSTTGLLSYSAKF 117
++ L + + ++AGA +VAPSDMMD RI AI+++L T+ +++YSAK+
Sbjct: 152 VSIDVLVRQALSHAEAGAQVVAPSDMMDGRIGAIREALESAGHTN-----VRVMAYSAKY 206
Query: 118 CSAFYGPFREAAGSAPTF--GDRSCYQ 142
SA+YGPFR+A GSA G+R+ YQ
Sbjct: 207 ASAYYGPFRDAVGSASNLGKGNRATYQ 233
Score = 144 bits (366), Expect = 3e-41
Identities = 45/93 (48%), Positives = 61/93 (65%), Gaps = 2/93 (2%)
Query: 208 ARDVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGALDLKR 267
A D+++GAD +MVKP +PYLDI+ VK A P FVYQVSGEYAM A Q G L +
Sbjct: 247 AADLAEGADMVMVKPGMPYLDIVRRVKDEFRA-PTFVYQVSGEYAMHMGAIQNGWLA-ES 304
Query: 268 ALMETLTCLRRGGADVIISYYTPRVLEWLREDK 300
++E+LT +R GAD I++Y+ + E LR +
Sbjct: 305 VILESLTAFKRAGADGILTYFAKQAAEQLRRGR 337
Score = 47.5 bits (114), Expect = 2e-06
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 150 LAIRAAVCLCGYTSHGHCAIFNEDGSIHYEKTLKRLADIS 189
L I VCLC +T+HG C I ++DG + + ++ L +
Sbjct: 122 LGIITDVCLCEFTTHGQCGILDDDGYVLNDVSIDVLVRQA 161
>1l6s_A Porphobilinogen synthase; dehydratase, lyase; HET: CME DSB; 1.70A
{Escherichia coli} SCOP: c.1.10.3 PDB: 1i8j_A* 1l6y_A*
1b4e_A
Length = 323
Score = 172 bits (439), Expect = 4e-52
Identities = 57/145 (39%), Positives = 80/145 (55%), Gaps = 11/145 (7%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNEDGSIHYE 61
DET S A D + ++ + ++ P + + D C C YTSHGHC + + + +
Sbjct: 82 HHTDETGSDAWREDGLVARMSRICKQTVPEMIVMSDTCFCEYTSHGHCGVL-CEHGVDND 140
Query: 62 KTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSL----FTSRQSSTTGLLSYSAKF 117
TL+ L + + AGA +APS MD ++ AI+Q+L F T ++SYS KF
Sbjct: 141 ATLENLGKQAVVAAAAGADFIAPSAAMDGQVQAIRQALDAAGFKD-----TAIMSYSTKF 195
Query: 118 CSAFYGPFREAAGSAPTFGDRSCYQ 142
S+FYGPFREAAGSA GDR YQ
Sbjct: 196 ASSFYGPFREAAGSAL-KGDRKSYQ 219
Score = 143 bits (364), Expect = 6e-41
Identities = 46/92 (50%), Positives = 63/92 (68%), Gaps = 3/92 (3%)
Query: 208 ARDVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGALDLKR 267
D +QGAD LMVKPA YLDI+ E++ R P+ YQVSGEYAM+ FAA AGA+D ++
Sbjct: 233 LLDEAQGADCLMVKPAGAYLDIVRELRERTE-LPIGAYQVSGEYAMIKFAALAGAIDEEK 291
Query: 268 ALMETLTCLRRGGADVIISYYTPRVLE--WLR 297
++E+L ++R GAD+I SY+ + E LR
Sbjct: 292 VVLESLGSIKRAGADLIFSYFALDLAEKKILR 323
Score = 43.6 bits (104), Expect = 4e-05
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 156 VCLCGYTSHGHCAIFNEDGSIHYEKTLKRLADIS 189
C C YTSHGHC + + + + TL+ L +
Sbjct: 118 TCFCEYTSHGHCGVL-CEHGVDNDATLENLGKQA 150
>3obk_A Delta-aminolevulinic acid dehydratase; ssgcid, structural genomics,
seattle structural genomics CEN infectious disease,
lyase; HET: PBG; 2.50A {Toxoplasma gondii ME49}
Length = 356
Score = 172 bits (439), Expect = 1e-51
Identities = 53/147 (36%), Positives = 81/147 (55%), Gaps = 11/147 (7%)
Query: 2 DLRDETASFADTPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFN-EDGSIHY 60
+L+ A + PD L + I +++ FP + + DV L Y+S GH + + + G I
Sbjct: 99 ELKSVMAEESYNPDGLLPRAIMALKEAFPDVLLLADVALDPYSSMGHDGVVDEQSGKIVN 158
Query: 61 EKTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSL----FTSRQSSTTGLLSYSAK 116
+ T+ +L + + AGA +V PSDMMD R+ AI++SL T T +L+YS K
Sbjct: 159 DLTVHQLCKQAITLARAGADMVCPSDMMDGRVSAIRESLDMEGCTD-----TSILAYSCK 213
Query: 117 FCSAFYGPFREAAGSAPTFG-DRSCYQ 142
+ S+FYGPFR+A S G D+ YQ
Sbjct: 214 YASSFYGPFRDALDSHMVGGTDKKTYQ 240
Score = 150 bits (382), Expect = 2e-43
Identities = 41/93 (44%), Positives = 58/93 (62%), Gaps = 1/93 (1%)
Query: 208 ARDVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGALDLKR 267
D S+GAD LMVKP LPYLD++++++ + P+ Y VSGEYAML AA+ G + K
Sbjct: 254 EADASEGADMLMVKPGLPYLDVLAKIREKSKL-PMVAYHVSGEYAMLKAAAEKGYISEKD 312
Query: 268 ALMETLTCLRRGGADVIISYYTPRVLEWLREDK 300
++E L RR GAD + +YY +W+ ED
Sbjct: 313 TVLEVLKSFRRAGADAVATYYAKEAAKWMVEDM 345
Score = 42.1 bits (100), Expect = 1e-04
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 156 VCLCGYTSHGHCAIFN-EDGSIHYEKTLKRLADIS 189
V L Y+S GH + + + G I + T+ +L +
Sbjct: 135 VALDPYSSMGHDGVVDEQSGKIVNDLTVHQLCKQA 169
>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 = 50.4 bits (120), Expect = 4e-07
Identities = 45/291 (15%), Positives = 82/291 (28%), Gaps = 94/291 (32%)
Query: 47 GHCAIFNEDGSI-HYEKTLKR-LADISKAFSDAGAHIVAPSDMMDNRIHAIKQSLFTSRQ 104
G+ + E + +++ L L + + + N IHA+ L
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCY------------LEGNDIHALAAKLLQEND 113
Query: 105 SSTTGLLSYSAKFCSAFYG-------PFREAAGSAPTFGDRSCYQLPCGSKGLAIRAAVC 157
++ L + + + PF + + SA L RA
Sbjct: 114 TT----LVKTKELIKNYITARIMAKRPFDKKSNSA----------L--------FRAV-- 149
Query: 158 LCGYTSHGH---CAIFNEDGSI-HYEKTLKRLADISKAFSDAVYVPNHNTDRFQARDV-- 211
G+ AIF G+ Y + L+ L + + T R
Sbjct: 150 -----GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 212 -----SQGADFLM------VKPALPYLDIISEVKSRHP-AYPL-FVYQVSGEYAMLAFAA 258
+QG + L P YL I P + PL V Q++ Y + A
Sbjct: 205 AEKVFTQGLNILEWLENPSNTPDKDYLLSI-------PISCPLIGVIQLA-HYVVTAKLL 256
Query: 259 QAGALDLKRALMETLTCLRRGGADVII-----------SYY--TPRVLEWL 296
+L+ L ++ S++ + + L
Sbjct: 257 GFTPGELRSYLKGATGH----SQGLVTAVAIAETDSWESFFVSVRKAITVL 303
Score = 46.6 bits (110), Expect = 7e-06
Identities = 34/149 (22%), Positives = 52/149 (34%), Gaps = 51/149 (34%)
Query: 146 GSKGLAIRAAVCLCGYTSHGHCAIF--NEDGSIHYEKTLKRLADISKAFSDAVYVPNHNT 203
G KG IR Y++ IF DG + EK K +I++ + +
Sbjct: 1678 GEKGKRIRE-----NYSAM----IFETIVDGKLKTEKIFK---EINEHSTSYTF--RSEK 1723
Query: 204 DRFQARDVSQGADFLMVKPALPYLDIISEVKSR-----------HPAYPLFVYQVS-GEY 251
A +Q A LM K A ++KS+ H S GEY
Sbjct: 1724 GLLSATQFTQPALTLMEK-A-----AFEDLKSKGLIPADATFAGH----------SLGEY 1767
Query: 252 AMLAFAAQAGALDLKRALMETLTCLR-RG 279
A A A+ A + ++ + + RG
Sbjct: 1768 A--ALASLADVMSIE----SLVEVVFYRG 1790
Score = 43.9 bits (103), Expect = 5e-05
Identities = 43/281 (15%), Positives = 89/281 (31%), Gaps = 83/281 (29%)
Query: 1 MDLRDETASF------AD--TPDNPLFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIF 52
MDL + + AD D F ++ ++ +LTI + I
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIH-------FGGEKGKRIR 1685
Query: 53 NEDGSIHYEKTLKRLADISKAFSDAGAHIV-----APSDMMDNRIHAIKQ-SLFTSRQSS 106
++ +E + K F + H + ++ Q +L
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT--QPALTL----- 1738
Query: 107 TTGLLSYSAKFC---SAFYGPFREA-AG------SAPTFGDRSCYQLPCGSKGLAIRAAV 156
+ +A F S P AG +A L + ++I + V
Sbjct: 1739 ----MEKAA-FEDLKSKGLIPADATFAGHSLGEYAA----------LASLADVMSIESLV 1783
Query: 157 CL----------------CGYTSHGHCAIFNEDGSIHY---EKTLKRLAD-ISKAFSDAV 196
+ G +++G AI G + ++ L+ + + + K V
Sbjct: 1784 EVVFYRGMTMQVAVPRDELGRSNYGMIAI--NPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 197 YVPNHNTDRFQARDVSQGADFLMVKPALPYL-DIISEVKSR 236
+ N+N + Q V+ G AL + ++++ +K +
Sbjct: 1842 EIVNYNVENQQY--VAAGD-----LRALDTVTNVLNFIKLQ 1875
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 38.4 bits (88), Expect = 9e-04
Identities = 14/61 (22%), Positives = 19/61 (31%), Gaps = 33/61 (54%)
Query: 96 KQSLFTSRQSSTTGLLSYSAKFCSAFYGPFREAAGSAPTFGDRSCYQLPCGSKGLAIRAA 155
KQ+L ++ L S K Y SAP LAI+A
Sbjct: 19 KQAL---KK------LQASLKL----YAD-----DSAP---------------ALAIKAT 45
Query: 156 V 156
+
Sbjct: 46 M 46
Score = 29.5 bits (65), Expect = 0.68
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 14/41 (34%)
Query: 61 EK-TLKRLADISKAFS-DAGAHIVAPSDMMDNRIHAIKQSL 99
EK LK+L K ++ D+ AP+ AIK ++
Sbjct: 18 EKQALKKLQASLKLYADDS-----APA-------LAIKATM 46
Score = 26.8 bits (58), Expect = 6.4
Identities = 11/47 (23%), Positives = 14/47 (29%), Gaps = 25/47 (53%)
Query: 179 EK-TLKRLADISKAFSDAVYVPNHNTDRFQARDVSQGADFLMVKPAL 224
EK LK+L K +Y + A PAL
Sbjct: 18 EKQALKKLQASLK-----LYADD------SA-------------PAL 40
>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 = 34.1 bits (77), Expect = 0.064
Identities = 48/318 (15%), Positives = 79/318 (24%), Gaps = 110/318 (34%)
Query: 2 DLRDETASFADTPDNPLFQVIPMI---RKQFPS------------LTIACDVCLCG---- 42
DL E + NP + +I + + LT + L
Sbjct: 317 DLPREVLTT-----NPR--RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369
Query: 43 -----YTSHGHCAIFNEDGSIHYEKTLKRL-ADISKAFSDAGAHIVAPSDMMDNRIHAIK 96
+ ++F I L + D+ K+ +++ K
Sbjct: 370 EYRKMFDR---LSVFPPSAHIP-TILLSLIWFDVIKSD---------VMVVVN---KLHK 413
Query: 97 QSLFTSRQSSTTGLLSYSAKFCSAFYGPFREAAGSAPTFGD-----RSCYQLPCGSKGLA 151
SL + +T S + E Y +P
Sbjct: 414 YSLVEKQPKEST----IS------IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 152 IRAAVCLCGYT-SH-GHCAIFNEDGSIHYEKTLKRLADISKAFSDAVYVPNHNTD-RF-Q 207
+ L Y SH GH H + + F V++ D RF +
Sbjct: 464 L-IPPYLDQYFYSHIGH----------HLKNI--EHPERMTLFRM-VFL-----DFRFLE 504
Query: 208 ARDVSQGADFLMVKPALP-------YLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQA 260
+ + L Y I + P Y V A+L F +
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKPYICD---NDPKYERLV------NAILDFLPKI 555
Query: 261 GA-------LDL-KRALM 270
DL + ALM
Sbjct: 556 EENLICSKYTDLLRIALM 573
Score = 29.4 bits (65), Expect = 1.8
Identities = 23/161 (14%), Positives = 36/161 (22%), Gaps = 43/161 (26%)
Query: 60 YEKTLKRLADIS-----KAFSDAGAHI--------VAPSDMMDNRIHAI---KQSLFTSR 103
YE L L ++ AF + I V H T
Sbjct: 243 YENCLLVLLNVQNAKAWNAF-NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 104 QSSTTGLLSYSAKF--CSAFYGPFREAAGSAP----TFG-------DRSCY--QLPCGSK 148
+ S K+ C P RE + P + C
Sbjct: 302 EV-----KSLLLKYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 149 GLAIRAAV-CLCGYTSHGH---CAIFNEDGSIHYEKTLKRL 185
I +++ L ++F I L +
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP-TILLSLI 395
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 30.2 bits (68), Expect = 0.87
Identities = 13/75 (17%), Positives = 25/75 (33%), Gaps = 19/75 (25%)
Query: 61 EKTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQSLFTSRQSSTTGLLSYSAKFCSA 120
+ L+ +A+ + S D+++ +I + +Q LL A S
Sbjct: 339 QSHLEAVAEAANCISLG--------DIVEKKIRSSEQLW---------SLLPLHAVLSSV 381
Query: 121 FYGPFREAAGSAPTF 135
P + AG
Sbjct: 382 --YPASKVAGHMAGR 394
>1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus
influenzae} SCOP: c.1.10.1 PDB: 1f5z_A 1f6p_A 1f73_A*
1f74_A* 1f7b_A*
Length = 293
Score = 29.8 bits (68), Expect = 1.1
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 3/31 (9%)
Query: 170 FNEDGSIHYEKTLKRLAD--ISKAFSDAVYV 198
FNEDG+I+ + L+++ I K D +YV
Sbjct: 15 FNEDGTINEKG-LRQIIRHNIDKMKVDGLYV 44
Score = 26.7 bits (60), Expect = 8.2
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 52 FNEDGSIHYEKTLKRLAD--ISKAFSDA 77
FNEDG+I+ + L+++ I K D
Sbjct: 15 FNEDGTINEKG-LRQIIRHNIDKMKVDG 41
>1m1j_A Fibrinogen alpha subunit; coiled coils, disulfide rings,
fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus
gallus} SCOP: h.1.8.1 PDB: 1ei3_A
Length = 491
Score = 28.8 bits (63), Expect = 2.3
Identities = 28/152 (18%), Positives = 44/152 (28%), Gaps = 13/152 (8%)
Query: 74 FSDAGAHIVAPSDMMDN--RIHAIKQSLFTSRQSSTTGLLSYSAKFCSAFYGPFREAAGS 131
+ + + + R+ +S FT ST+ S + S G G+
Sbjct: 329 GREGSTYHFSGTGDFHKLDRLLPDLESFFTHDSVSTSSRHSIGSSTSSHVTGAGSSHLGT 388
Query: 132 --APTFGDRSCYQLPCGSKGLAIRAAVCLCGYTSHGHCAI------FNEDGSIHYEKTLK 183
F D + A G SH + FN+ GS K+LK
Sbjct: 389 GGKDKFTDLGEEEEDDFGGLQPSGFAA---GSASHSKTVLTSSSSSFNKGGSTFETKSLK 445
Query: 184 RLADISKAFSDAVYVPNHNTDRFQARDVSQGA 215
+ +T F+AR A
Sbjct: 446 TRETSEQLGGVQHDQSAEDTPDFKARSFRPAA 477
>1vcz_A RNAse NGR3; hydrolase, ribonuclease; HET: 5GP; 1.80A {Nicotiana
glutinosa} PDB: 1vd1_A* 1vd3_A*
Length = 217
Score = 28.5 bits (63), Expect = 2.6
Identities = 6/43 (13%), Positives = 16/43 (37%)
Query: 161 YTSHGHCAIFNEDGSIHYEKTLKRLADISKAFSDAVYVPNHNT 203
+ HG C+ E ++ +++ + +A P +
Sbjct: 98 WLKHGTCSALGERAYFQAALDFRKKSNLLENLKNAEITPRNGE 140
Score = 26.9 bits (59), Expect = 8.3
Identities = 8/55 (14%), Positives = 22/55 (40%), Gaps = 3/55 (5%)
Query: 43 YTSHGHCAIFNEDGSIHYEKTLKRLADISKAFSDAGAHIVAPSDMMDNRIHAIKQ 97
+ HG C+ E ++ +++ + +A + P + + +IK+
Sbjct: 98 WLKHGTCSALGERAYFQAALDFRKKSNLLENLKNAE---ITPRNGEHYTLESIKK 149
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 28.7 bits (64), Expect = 2.8
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 12/45 (26%)
Query: 266 KRALM----------ETLTCLRRGGADVII--SYYTPRVLEWLRE 298
K L+ E L L +GGA V++ S ++ +V ++ +
Sbjct: 477 KYVLITGAGKGSIGAEVLQGLLQGGAKVVVTTSRFSKQVTDYYQS 521
>1wew_A DNA-binding family protein; structural genomics, PHD domain,
riken structural genomics/proteomics initiative, RSGI,
DNA binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 78
Score = 26.6 bits (58), Expect = 3.1
Identities = 6/24 (25%), Positives = 8/24 (33%)
Query: 32 LTIACDVCLCGYTSHGHCAIFNED 55
I C+ C H C I +
Sbjct: 29 SMIQCEDPRCHVWQHVGCVILPDK 52
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 28.3 bits (63), Expect = 3.4
Identities = 25/121 (20%), Positives = 37/121 (30%), Gaps = 19/121 (15%)
Query: 182 LKRLADISKAFSDAVYVPNHNTDRFQARDVSQGADFLMVKPALPYLDIISEVKSRHPAYP 241
+ + +V NH+T+ QA F + A R YP
Sbjct: 311 MTNTLMKDQPTLAVTFVDNHDTEPGQALQSWVDPWFKPLAYAFILT--------RQEGYP 362
Query: 242 LFVYQVSG-EYAMLAFAAQAGALDLKRALMETLTCLRRGGAD-VIISYYT-PRVLEWLRE 298
V+ G Y + Q LK + + L RR A Y ++ W RE
Sbjct: 363 -CVFY--GDYYGI----PQYNIPSLKSKI-DPLLIARRDYAYGTQHDYLDHSDIIGWTRE 414
Query: 299 D 299
Sbjct: 415 G 415
>2yfo_A Alpha-galactosidase-sucrose kinase agask; hydrolase; HET: GLA GAL;
1.35A {Ruminococcus gnavus E1} PDB: 2yfn_A*
Length = 720
Score = 28.5 bits (63), Expect = 3.6
Identities = 12/85 (14%), Positives = 27/85 (31%), Gaps = 7/85 (8%)
Query: 18 LFQVIPMIRKQFPSLTIACDVCLCGYTSHGHCAIFNE----DGSIHYEKTLKRLADISKA 73
++ + + ++P L + G G + D + + S
Sbjct: 499 VYDFMERLCSRYPDLLLEGCSGGGGRFDAGMLYYSPQIWCSDNTDAIN-RTRIQYGTSFF 557
Query: 74 F--SDAGAHIVAPSDMMDNRIHAIK 96
+ S GAH+ A + R+ +
Sbjct: 558 YPVSAMGAHVSAVPNHQTGRVTSFH 582
>3kv5_D JMJC domain-containing histone demethylation protein 1D;
epigenetics, histone CODE, jumonji lysine demethylase,
metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo
sapiens} PDB: 3kv6_A*
Length = 488
Score = 28.1 bits (61), Expect = 3.7
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 34 IACDVCLCGYTSHGHCAIFNEDGSIHYEK 62
I CD+C + HG C E ++ +
Sbjct: 53 IECDICKDWF--HGSCVGVEEHHAVDIDL 79
>3kqi_A GRC5, PHD finger protein 2; metal-binding, zinc-finger,
histone-binding, NUC protein; HET: M3L; 1.78A {Homo
sapiens}
Length = 75
Score = 26.4 bits (58), Expect = 3.8
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 34 IACDVCLCGYTSHGHCAIFNEDGSIHYEK 62
I CD C + HG C E+ + +
Sbjct: 26 IECDACKDWF--HGSCVGVEEEEAPDIDI 52
>1rtt_A Conserved hypothetical protein; protein structure initiative, SAD
with sulfur, putative REDU PSI; 1.28A {Pseudomonas
aeruginosa} SCOP: c.23.5.4 PDB: 1x77_A*
Length = 193
Score = 27.3 bits (61), Expect = 4.7
Identities = 5/27 (18%), Positives = 11/27 (40%)
Query: 170 FNEDGSIHYEKTLKRLADISKAFSDAV 196
F+ G + +K + + +A V
Sbjct: 156 FDAQGRLLDDKARELIQQQLQALQLWV 182
>2rsd_A E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant homeodomain
(PHD), histone binding; NMR {Oryza sativa japonica
group}
Length = 68
Score = 25.7 bits (56), Expect = 5.1
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 32 LTIACDVCLCGYTSHGHCAIFNED 55
I C+ C H +C + +
Sbjct: 23 SMIQCEDQRCQVWQHLNCVLIPDK 46
>1wep_A PHF8; structural genomics, PHD domain, riken structural
genomics/proteomics initiative, RSGI, DNA binding
protein; NMR {Mus musculus} SCOP: g.50.1.2
Length = 79
Score = 26.1 bits (57), Expect = 5.4
Identities = 7/29 (24%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 34 IACDVCLCGYTSHGHCAIFNEDGSIHYEK 62
I C +C + HG C E+ ++ +
Sbjct: 28 IECGLCQDWF--HGSCVGIEEENAVDIDI 54
>3svl_A Protein YIEF; E. coli CHRR enzyme, chromate bioremediation,
tetramer role, mutant enzymes, oxidoreductase; HET: FMN;
2.20A {Escherichia coli}
Length = 193
Score = 26.9 bits (60), Expect = 7.3
Identities = 6/36 (16%), Positives = 12/36 (33%)
Query: 161 YTSHGHCAIFNEDGSIHYEKTLKRLADISKAFSDAV 196
+ + G + + TL L AF + +
Sbjct: 148 MGGVIQNKVDPQTGEVIDQGTLDHLTGQLTAFGEFI 183
>3i10_A Putative glycerophosphoryl diester phosphodiester; NP_812074.1;
HET: MSE; 1.35A {Bacteroides thetaiotaomicron vpi-5482}
Length = 278
Score = 27.1 bits (60), Expect = 8.0
Identities = 13/95 (13%), Positives = 31/95 (32%), Gaps = 6/95 (6%)
Query: 204 DRFQARDVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGAL 263
+ + + P P I ++ + ++ + G A AL
Sbjct: 185 TDYLKELRPAAFEIIYSDPKNPLPPKIKQLLFKK--SLIWYNTLWGSLA--GNHDDNLAL 240
Query: 264 DLKRALMETLTCLRRGGADVIISYYTPRVLEWLRE 298
L + + GA ++ + +L++LR+
Sbjct: 241 TDPEKSYGYL--IEQLGARILQTDQPAYLLDYLRK 273
>1j93_A UROD, uroporphyrinogen decarboxylase; beta barrel, plastidial
enzyme, crystallographic dimer, lyase; 2.30A {Nicotiana
tabacum} SCOP: c.1.22.1
Length = 353
Score = 27.1 bits (61), Expect = 8.4
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 223 ALPYL-DIISEVKSRHPAYPLFVYQVSGEYAMLAFAAQAGA 262
+LPYL I+ VK HP PL +Y G +L G
Sbjct: 229 SLPYLKQIVDSVKLTHPNLPLILYAS-GSGGLLERLPLTGV 268
>2uv8_A Fatty acid synthase subunit alpha (FAS2); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_A* 3hmj_A*
Length = 1887
Score = 27.2 bits (60), Expect = 8.8
Identities = 21/103 (20%), Positives = 42/103 (40%), Gaps = 17/103 (16%)
Query: 210 DVSQGADFLMVKPALPYLDIISEVKSRHPAYPLFVYQVSGEY-AMLAFAAQAG-ALDLKR 267
+S+ + + +P+L + + + Y Q+S + L AA G K
Sbjct: 621 TISKTVSSTIPRETIPFLHLRKKTPAGDWKYDR---QLSSLFLDGLEKAAFNGVTFKDKY 677
Query: 268 ALM----------ETLTCLRRGGADVII--SYYTPRVLEWLRE 298
L+ E L L +GGA V++ S ++ +V ++ +
Sbjct: 678 VLITGAGKGSIGAEVLQGLLQGGAKVVVTTSRFSKQVTDYYQS 720
>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding,
biotin, disease mutation, gluconeogenesis, ligase, lipid
synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens}
PDB: 3bg9_A
Length = 718
Score = 27.3 bits (61), Expect = 8.9
Identities = 9/52 (17%), Positives = 21/52 (40%), Gaps = 8/52 (15%)
Query: 36 CDVCLCGYTSHGHCAIFNEDGSIHYEKTLKRLADISKAFSDAGAHIVAPSDM 87
+ + YT + + + + +L+ +++ AG HI+ DM
Sbjct: 240 VEAAIS-YTGD----VADPSRTKY---SLQYYMGLAEELVRAGTHILCIKDM 283
>3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP; 2.71A
{Staphylococcus aureus subsp} PDB: 3bg5_A* 3ho8_A*
3hb9_A*
Length = 1150
Score = 27.3 bits (61), Expect = 9.0
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 7/52 (13%)
Query: 36 CDVCLCGYTSHGHCAIFNEDGSIHYEKTLKRLADISKAFSDAGAHIVAPSDM 87
+ +C YT I N + S Y TL+ ++K G HI+A DM
Sbjct: 670 SEGTIC-YTGD----ILNPERSNIY--TLEYYVKLAKELEREGFHILAIKDM 714
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
0.323 0.136 0.416
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,697,377
Number of extensions: 278951
Number of successful extensions: 973
Number of sequences better than 10.0: 1
Number of HSP's gapped: 959
Number of HSP's successfully gapped: 60
Length of query: 300
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 207
Effective length of database: 4,105,140
Effective search space: 849763980
Effective search space used: 849763980
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.8 bits)