RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17685
(286 letters)
>3c1l_A Putative antioxidant defense protein MLR4105; structural genomics,
joint center for structural genomics, J protein
structure initiative; 2.00A {Mesorhizobium loti}
Length = 188
Score = 50.6 bits (121), Expect = 7e-08
Identities = 23/123 (18%), Positives = 42/123 (34%), Gaps = 6/123 (4%)
Query: 114 KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKE 173
+ +V + + L F N +M G+ LS R IA+ + + C Y +
Sbjct: 33 LVPNVLKAYAFDDKKLRAFTDIYNDLMLGESGLSKLDREMIAVAVSSINHCYYCLTAHGA 92
Query: 174 EFLSQGGDQDWLKGLSYAPK------KLGLLYEVNKILAHRPWLLNPSHLQKLTKNGWSL 227
GD + L + + + E L P + + L K G+S
Sbjct: 93 AVRQLSGDPALGEMLVMNFRAADLSPRQTAMLEFAVKLTEEPAKIVEADRAALRKAGFSD 152
Query: 228 GEL 230
++
Sbjct: 153 RDI 155
>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 = 51.6 bits (123), Expect = 1e-07
Identities = 55/344 (15%), Positives = 98/344 (28%), Gaps = 128/344 (37%)
Query: 1 MN-WCTMTIALLHHALNF-LSLPVDFLLGFLYFRGSIFFEPFRPNLN------------- 45
M+ + T + L H +L L +P +F S E F L
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTA-----SFFIASQLQEQFNKILPEPTEGFAADDEPT 55
Query: 46 -------RDLLFAGIRHDDYDYGEVNQLLERSLKSFIKTTACYPERMTSEEY---NNVLK 95
+ L + + G+ +Q+L L F E Y N++
Sbjct: 56 TPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF--------EN----CYLEGNDI-- 101
Query: 96 EFHHSEKSQLYSD-DTFLQKLDHVTQ------------VMGYHPTYL---------NIFL 133
H+ ++L + DT L K + + + L +
Sbjct: 102 ---HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 134 RTQNYIMRGDGP-------LS--YE-YRHYIA--IMAAGRHQCSYLINLQK-----EEFL 176
I G G L Y+ Y + I + L L + E+
Sbjct: 159 -----IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET----LSELIRTTLDAEKVF 209
Query: 177 SQGGD-QDWLKG---------LSYAP---KKLGLLYEVNKILAHRPWLLNPSHLQKLTKN 223
+QG + +WL+ L P +G++ + ++ + P L+ K
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK- 268
Query: 224 GWSLGELCHALVLLV-----------NFHSLAS----FVFACGV 252
G H+ L+ +F +F GV
Sbjct: 269 ----GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV 308
Score = 35.8 bits (82), Expect = 0.016
Identities = 33/200 (16%), Positives = 53/200 (26%), Gaps = 77/200 (38%)
Query: 85 MTSEEYNN------VLKEFHHSEKSQLYSDDTFLQKLDH-VTQVMGYHPTYLNIF----- 132
M + Y V +D+ F + ++ +P L I
Sbjct: 1631 MGMDLYKTSKAAQDVWNR----------ADNHFKDTYGFSILDIVINNPVNLTIHFGGEK 1680
Query: 133 ---LRTQNYI-MRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKEEFLSQGGDQDWLKG- 187
+R +NY M + + + + H SY ++ L
Sbjct: 1681 GKRIR-ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR----------SEKGLLSAT 1729
Query: 188 ---------LSYAP----KKLGLLYEVNKILA-HRPWLLNPSHLQKLTKNGWSLGE---L 230
+ A K GL+ + A H SLGE L
Sbjct: 1730 QFTQPALTLMEKAAFEDLKSKGLI-PADATFAGH------------------SLGEYAAL 1770
Query: 231 CH-ALVLLVNFHSLASFVFA 249
A V+ + SL VF
Sbjct: 1771 ASLADVM--SIESLVEVVFY 1788
>2pfx_A Uncharacterized peroxidase-related protein; YP_614459.1, STR
genomics, joint center for structural genomics, JCSG,
prote structure initiative; HET: MSE PG4; 1.70A
{Silicibacter SP} SCOP: a.152.1.3
Length = 191
Score = 49.5 bits (118), Expect = 2e-07
Identities = 19/123 (15%), Positives = 47/123 (38%), Gaps = 6/123 (4%)
Query: 114 KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKE 173
+ +V + ++ LN F N +M G+ LS R IA++ + ++C Y +
Sbjct: 36 MVPNVLKAYAFNVEKLNAFTAMYNDLMLGESQLSKLEREMIAVVVSSINKCFYCLVAHGA 95
Query: 174 EFLSQGGDQDWLKGLSYAPK------KLGLLYEVNKILAHRPWLLNPSHLQKLTKNGWSL 227
GD + L + + ++ + + + + + L +G++
Sbjct: 96 AVRQLSGDPQLGEMLVMNYRVAPLDARQRVMLDFAAKMTRASAEIEEADREVLRSHGFND 155
Query: 228 GEL 230
++
Sbjct: 156 RDI 158
>2oyo_A Uncharacterized peroxidase-related protein; YP_604910.1,
uncharacterised peroxidase-related, uncharacter
peroxidase-related; 1.51A {Deinococcus geothermalis}
SCOP: a.152.1.3
Length = 196
Score = 49.0 bits (117), Expect = 2e-07
Identities = 17/123 (13%), Positives = 42/123 (34%), Gaps = 6/123 (4%)
Query: 114 KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKE 173
+ +V + + + N ++ +G L+ R +A++ +G ++C Y
Sbjct: 41 FVPNVFRAQAVNGEQFLAWWNYFNLLLNKEGYLTNAERELVAVVVSGVNRCLYCAVSHGA 100
Query: 174 EFLSQGGDQDWLKGLSYAPK------KLGLLYEVNKILAHRPWLLNPSHLQKLTKNGWSL 227
GD ++ + + L + L P + + L+ L G
Sbjct: 101 ALREFLGDPQKADAVAVNWRHADLTEREQALAAYAEKLTRHPAEVTAADLEPLRAVGLDD 160
Query: 228 GEL 230
++
Sbjct: 161 HQI 163
>2prr_A Alkylhydroperoxidase AHPD core: uncharacterized P related protein;
YP_296737.1, carboxymuconolactone decarboxylase family;
HET: PGE; 2.15A {Ralstonia eutropha} SCOP: a.152.1.3
Length = 197
Score = 49.1 bits (117), Expect = 3e-07
Identities = 15/123 (12%), Positives = 40/123 (32%), Gaps = 6/123 (4%)
Query: 114 KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKE 173
+ +V + + P F + +M DG L+ R I + + +QC Y +
Sbjct: 37 FVPNVFLTLAHRPDEFRAFFAYHDALMLKDGGLTKGEREMIVVATSAANQCLYCVVAHGA 96
Query: 174 EFLSQGGDQDWLKGLSYAPK------KLGLLYEVNKILAHRPWLLNPSHLQKLTKNGWSL 227
++ + + + + +N + + L ++G++
Sbjct: 97 ILRIYEKKPLVADQVAVNYLKADIPPRQRAMLDFALKVCKASHEVNEADFEALREHGFTD 156
Query: 228 GEL 230
+
Sbjct: 157 EDA 159
>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 = 41.4 bits (96), Expect = 3e-04
Identities = 37/251 (14%), Positives = 77/251 (30%), Gaps = 58/251 (23%)
Query: 55 HDDYDYGEV----NQLLERSLKSFIKTTACY--PERM----TSEEYNNVLKEFHHSEKSQ 104
H D++ GE +L +F+ C + + EE ++++ +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 105 LYSDDTFLQKLDHVTQVM--------------GYHPTYLNIFLRTQNYI-----MRGDGP 145
T L K + + Q + T+ YI + D
Sbjct: 66 RLF-WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 146 LSYEY-----RHYIAIMAAGRHQCSYLINLQKEEFLS-QG----GDQDWLKGLSYAPKKL 195
+ +Y + Y+ + A L+ L+ + + G G W+ K+
Sbjct: 125 VFAKYNVSRLQPYLKLRQA-------LLELRPAKNVLIDGVLGSGKT-WVALDVCLSYKV 176
Query: 196 GLLYEVNKILAHRPWLLNPSHLQKLTKNGWSLGELCHALVLLVNFHSLASFVFACGVNEE 255
+ KI W LN + L +L + + N+ S + + +
Sbjct: 177 QCKMD-FKIF----W-LNLKNCNSPETVLEMLQKLLYQIDP--NWTSRSD--HSSNIKLR 226
Query: 256 LDSLTDSKNKL 266
+ S+ +L
Sbjct: 227 IHSIQAELRRL 237
Score = 39.5 bits (91), Expect = 0.001
Identities = 24/121 (19%), Positives = 43/121 (35%), Gaps = 21/121 (17%)
Query: 94 LKEFHHSEK----SQLYSDDTFLQ-KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSY 148
LK H E+ ++ D FL+ K+ H + + LN + +
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF----------- 529
Query: 149 EYRHYIAIMAAGRHQ--CSYLINLQK-EEFLSQGGDQDWLKGLSYAPKKLGLLYEVNKIL 205
Y+ YI + + L L K EE L D L+ ++ + + E +K +
Sbjct: 530 -YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR-IALMAEDEAIFEEAHKQV 587
Query: 206 A 206
Sbjct: 588 Q 588
>3lvy_A Carboxymuconolactone decarboxylase family; alpha-structure,
structural genomics, PSI-2, protein structure
initiative; 2.10A {Streptococcus mutans}
Length = 207
Score = 36.5 bits (84), Expect = 0.005
Identities = 13/123 (10%), Positives = 35/123 (28%), Gaps = 8/123 (6%)
Query: 114 KLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKE 173
+ ++ ++ PT L + + L+ R + I AA + C++ +
Sbjct: 52 YIPNLIGLLANAPTALETYRTVGE--INRRNSLTPTEREVVQITAAVTNGCAFCVAGHTA 109
Query: 174 EFLSQGGDQDWLKGLSYAPKKLGL------LYEVNKILAHRPWLLNPSHLQKLTKNGWSL 227
+ Q L + L + + + + + G++
Sbjct: 110 FSIKQIQMAPDLLEALRNATPIDDDPKLDTLAKFTIAVINTKGRVGDEAFADFLEVGYTP 169
Query: 228 GEL 230
Sbjct: 170 ENA 172
>2ouw_A Alkylhydroperoxidase AHPD core; YP_425393.1, carboxymuconolactone
decarboxylase family, structural genomics, joint for
structural genomics; 1.95A {Rhodospirillum rubrum} SCOP:
a.152.1.4
Length = 138
Score = 35.0 bits (80), Expect = 0.010
Identities = 11/46 (23%), Positives = 17/46 (36%)
Query: 121 VMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSY 166
+ P L +M G+G L R I + + + CSY
Sbjct: 41 GLANDPALLKRTWEQVKTVMVGEGALDPLTREMIYLAVSTANSCSY 86
>1vke_A Carboxymuconolactone decarboxylase family protein; TM1620,
structural genomics, JC protein structure initiative,
PSI; 1.56A {Thermotoga maritima} SCOP: a.152.1.2
Length = 133
Score = 30.7 bits (69), Expect = 0.23
Identities = 11/91 (12%), Positives = 32/91 (35%), Gaps = 9/91 (9%)
Query: 91 NNVLKEFHHSEKSQLYSDDT--FLQKLDHVTQVMGYHPTYLNIFLRTQNYIMRGDGPLSY 148
++ + HH + + + + +K+ + F + + R G L
Sbjct: 3 SDKIHHHHHHMEYKKFVEARRELNEKV------LSRGTLNTKRFFNLDSAVYR-PGKLDV 55
Query: 149 EYRHYIAIMAAGRHQCSYLINLQKEEFLSQG 179
+ + + ++A+ +C I + +G
Sbjct: 56 KTKELMGLVASTVLRCDDCIRYHLVRCVQEG 86
>2cwq_A Hypothetical protein TTHA0727; conserved hypothetical protein, all
alpha, structural genomi NPPSFA; 1.90A {Thermus
thermophilus} SCOP: a.152.1.4
Length = 137
Score = 30.4 bits (68), Expect = 0.32
Identities = 11/56 (19%), Positives = 15/56 (26%)
Query: 124 YHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKEEFLSQG 179
P L R+ Y M G L + R I + A + G
Sbjct: 50 KAPGLLLEHGRSWTYAMPEKGALDEKTRTLILLGIALATGSEACVKAMAHRAKRLG 105
>1p8c_A Conserved hypothetical protein; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 2.30A {Thermotoga maritima} SCOP:
a.152.1.2
Length = 145
Score = 30.3 bits (68), Expect = 0.38
Identities = 11/104 (10%), Positives = 31/104 (29%), Gaps = 21/104 (20%)
Query: 76 KTTACYPERMTSEEYNNVLKEFHHSEKSQLYSDDTFLQKLDHVTQVMGYHPTYLNIFLRT 135
+ + M +++ +E + +V+ F
Sbjct: 14 RENLYFQGHMEYKKFVEARRELN--------------------EKVLSRGTLNTKRFFNL 53
Query: 136 QNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKEEFLSQG 179
+ + R G L + + + ++A+ +C I + +G
Sbjct: 54 DSAVYR-PGKLDVKTKELMGLVASTVLRCDDCIRYHLVRCVQEG 96
>3bey_A Conserved protein O27018; TT217, NESG, structural genomics, PSI-2,
PROT structure initiative; 2.40A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 96
Score = 29.0 bits (65), Expect = 0.54
Identities = 10/60 (16%), Positives = 21/60 (35%), Gaps = 1/60 (1%)
Query: 120 QVMGYHPTYLNIFLRTQNYIMRGDGPLSYEYRHYIAIMAAGRHQCSYLINLQKEEFLSQG 179
+ + P F + + +G L+ + I++ + +C EE L G
Sbjct: 7 RFLEELPEVAESFKNFREAVRS-EGKLTEREKLLISVACSVAVRCDACTRRHAEEALEAG 65
>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 = 28.8 bits (63), Expect = 1.3
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 7/32 (21%)
Query: 62 EVNQL--LERSLKSFIKTTACYPE---RMTSE 88
E L L+ SLK + +A P + T E
Sbjct: 18 EKQALKKLQASLKLYADDSA--PALAIKATME 47
Score = 28.4 bits (62), Expect = 1.9
Identities = 8/17 (47%), Positives = 11/17 (64%), Gaps = 2/17 (11%)
Query: 94 LKEFHHSEKSQLYSDDT 110
LK+ S K LY+DD+
Sbjct: 22 LKKLQASLK--LYADDS 36
>2kr6_A Presenilin-1; protease, alternative splicing, alzheimer disease,
amyloidos apoptosis, cell adhesion, disease mutation;
NMR {Homo sapiens}
Length = 176
Score = 27.6 bits (60), Expect = 3.9
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 4 CTMTIALLHHALNFLSLPVDFLLGFLYFRGSIFFEPFRPNLNRDLLF 50
+ +A+ AL L + + F L F YF +PF L +
Sbjct: 130 TLLLLAIFKKALPALPISITFGLVF-YFATDYLVQPFMDQLAFHQFY 175
>3u1t_A DMMA haloalkane dehalogenase; alpha/beta-hydrolase, hydrolase;
2.20A {Unidentified}
Length = 309
Score = 27.3 bits (61), Expect = 5.1
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 10/37 (27%)
Query: 138 YIMRGDGPL----------SYEYRHYIAIMAAGRHQC 164
Y+ G G SY +R+ I + A ++
Sbjct: 23 YVDEGSGQPVLFLHGNPTSSYLWRNIIPYVVAAGYRA 59
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
0.322 0.138 0.423
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,340,756
Number of extensions: 247566
Number of successful extensions: 421
Number of sequences better than 10.0: 1
Number of HSP's gapped: 418
Number of HSP's successfully gapped: 20
Length of query: 286
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 193
Effective length of database: 4,105,140
Effective search space: 792292020
Effective search space used: 792292020
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 (21.9 bits)
S2: 57 (25.6 bits)