RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12847
(188 letters)
>1sfe_A ADA O6-methylguanine-DNA methyltransferase; enzyme, nucleic acid
binding DNA repair protein, DNA-binding protein; 2.10A
{Escherichia coli} SCOP: a.4.2.1 c.55.7.1
Length = 180
Score = 168 bits (428), Expect = 7e-54
Identities = 52/156 (33%), Positives = 79/156 (50%), Gaps = 5/156 (3%)
Query: 21 KMLIAYYDKSCIIQAIMFGANPEYLYVDLTKLYSHIEYIKMFESKQSRDIIDRLEAYIVN 80
+ L+A ++ I AI+ G + L +L +++ + + + + A +
Sbjct: 26 RCLVAESERG--ICAILLGDDDATLISELQQMFPAADNAP--ADLMFQQHVREVIASLNQ 81
Query: 81 PKQNCLDIKFKIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNN 140
L + I GT FQ+ VW L IP G SY +A IG+PK+ RAVA+AC N
Sbjct: 82 RDTP-LTLPLDIRGTAFQQQVWQALRTIPCGETVSYQQLANAIGKPKAVRAVASACAANK 140
Query: 141 IPILIPCHRVIRSDGSYGGYSSGKYIKETLIKIEQK 176
+ I+IPCHRV+R DGS GY G K L++ E +
Sbjct: 141 LAIVIPCHRVVRGDGSLSGYRWGVSRKAQLLRREAE 176
>3l00_A SNAP-TAG; protein TAG, protein engineering, benzylguanine,
benzylated transferase; HET: BCS; 1.70A {Homo sapiens}
PDB: 3kzy_A* 3kzz_A* 1yfh_A* 1t39_A* 1qnt_A 1t38_A*
Length = 182
Score = 147 bits (372), Expect = 2e-45
Identities = 31/89 (34%), Positives = 50/89 (56%)
Query: 93 EGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIR 152
+ + ++++W L + FG + SY+ +A G P + AV A N +PILIPCHRV++
Sbjct: 94 QESFTRQVLWKLLKVVKFGEVISYSHLAALAGNPAATAAVKTALSGNPVPILIPCHRVVQ 153
Query: 153 SDGSYGGYSSGKYIKETLIKIEQKIVSEK 181
D GGY G +KE L+ E + ++
Sbjct: 154 GDLDVGGYEGGLAVKEWLLAHEGHRLGKR 182
>1eh6_A O6-alkylguanine-DNA alkyltransferase; methyltransferase, DNA
repair; 2.00A {Homo sapiens} SCOP: a.4.2.1 c.55.7.1 PDB:
1eh7_A 1eh8_A*
Length = 207
Score = 145 bits (368), Expect = 2e-44
Identities = 35/89 (39%), Positives = 52/89 (58%)
Query: 93 EGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIR 152
+ + ++++W L + FG + SY +A G PK+ARAV A N +PILIPCHRV+
Sbjct: 91 QESFTRQVLWKLLKVVKFGEVISYQQLAALAGNPKAARAVGGAMRGNPVPILIPCHRVVC 150
Query: 153 SDGSYGGYSSGKYIKETLIKIEQKIVSEK 181
S G+ G YS G +KE L+ E + +
Sbjct: 151 SSGAVGNYSGGLAVKEWLLAHEGHRLGKP 179
>2g7h_A Methylated-DNA--protein-cysteine methyltransferase; protein
structure, DNA repair, DNA methyltransferase; NMR
{Methanocaldococcus jannaschii}
Length = 167
Score = 130 bits (330), Expect = 3e-39
Identities = 35/108 (32%), Positives = 59/108 (54%), Gaps = 5/108 (4%)
Query: 74 LEAY--IVNPKQNCLDIKFKIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARA 131
L+ Y ++ K+ I +K+E +F K V + I FG +Y D+A+ + S RA
Sbjct: 55 LKLYFAEIDDKKVRELISYKLEVPEFTKKVLDIVKDIEFGKTLTYGDIAKKLN--TSPRA 112
Query: 132 VANACGQNNIPILIPCHRVIRSDGSYGGYSSGKYIKETLIKIEQKIVS 179
V A +N +P++IPCHRV+ + GGYS G K+ +++ E+ +
Sbjct: 113 VGMALKRNPLPLIIPCHRVVAKNS-LGGYSYGLDKKKFILERERLNMV 159
>1mgt_A MGMT, protein (O6-methylguanine-DNA methyltransferase); DNA repair
protein, suicidal enzyme, hyperthermostability; 1.80A
{Thermococcus kodakarensis} SCOP: a.4.2.1 c.55.7.1
Length = 174
Score = 128 bits (324), Expect = 3e-38
Identities = 46/171 (26%), Positives = 79/171 (46%), Gaps = 9/171 (5%)
Query: 9 LVALNESSCIGTKMLIAYYDKSCIIQAIMFGANPEYLYVDLTKLYSHI--EYIKMFESKQ 66
++++ + + I + Q I F + L + L H+ + + Q
Sbjct: 1 MLSVEKFRVGERVVWIGVIFSGRV-QGIAFAFDRGTLMKRIHDLAEHLGKRGVSISLDVQ 59
Query: 67 SRDIIDRLEAYIV-NPKQNCLDIKFKIEG-TDFQKLVWSELCK-IPFGSLCSYADVARNI 123
D +++ ++ + EG T F+K V+ L K + GS+ +Y D+A+ +
Sbjct: 60 PSDYPEKVFKVLIGELDNASFLRELSFEGVTPFEKKVYEWLTKNVKRGSVITYGDLAKAL 119
Query: 124 GRPKSARAVANACGQNNIPILIPCHRVIRSDGSYGGYSSGKYIKETLIKIE 174
S RAV A +N PI++PCHRV+ DG G YSSG K+ L++IE
Sbjct: 120 N--TSPRAVGGAMKRNPYPIVVPCHRVVAHDG-IGYYSSGIEEKKFLLEIE 167
>1wrj_A Methylated-DNA--protein-cysteine methyltransferase; 2.00A
{Sulfolobus tokodaii}
Length = 156
Score = 124 bits (315), Expect = 4e-37
Identities = 31/89 (34%), Positives = 50/89 (56%), Gaps = 4/89 (4%)
Query: 87 DIKFKIEG-TDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILI 145
+ +F+ V+ E+ +I +G + +Y VA + S RAV A +NN+ ++I
Sbjct: 61 TEPVDFKPFNEFRIRVFKEVMRIKWGEVRTYKQVADAVK--TSPRAVGTALSKNNVLLII 118
Query: 146 PCHRVIRSDGSYGGYSSGKYIKETLIKIE 174
PCHRVI + S GGYS G +K L+++E
Sbjct: 119 PCHRVI-GEKSLGGYSRGVELKRKLLELE 146
>3gva_A Alkyltransferase-like protein 1; alkylated DNA damage repair, DNA
damage, DNA repair, DNA- binding, DNA binding protein;
2.00A {Schizosaccharomyces pombe} PDB: 3gx4_X* 3gyh_X*
Length = 116
Score = 113 bits (286), Expect = 3e-33
Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 2/85 (2%)
Query: 92 IEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVI 151
+ +F V+ +C+IP+G + +Y ++AR +G P AR V A + +P HRVI
Sbjct: 1 MRMDEFYTKVYDAVCEIPYGKVSTYGEIARYVGMPSYARQVGQAMKHLHPETHVPWHRVI 60
Query: 152 RSDGSYGGYS--SGKYIKETLIKIE 174
S G+ +G+ ++ ++ E
Sbjct: 61 NSRGTISKRDISAGEQRQKDRLEEE 85
>2kif_A O6-methylguanine-DNA methyltransferase; methods development,
solution structure, DNA base repair methylguanine
methyltransferase; NMR {Vibrio parahaemolyticus AQ3810}
PDB: 2kim_A
Length = 108
Score = 113 bits (284), Expect = 4e-33
Identities = 20/80 (25%), Positives = 35/80 (43%)
Query: 95 TDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCHRVIRSD 154
F +++ + +IP G + +Y ++A+ G P AR V A G +P RVI S
Sbjct: 2 DQFLVQIFAVIHQIPKGKVSTYGEIAKMAGYPGYARHVGKALGNLPEGSKLPWFRVINSQ 61
Query: 155 GSYGGYSSGKYIKETLIKIE 174
G ++ ++ E
Sbjct: 62 GKISLKGRDLDRQKQKLEAE 81
>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 = 43.9 bits (103), Expect = 1e-05
Identities = 37/178 (20%), Positives = 58/178 (32%), Gaps = 58/178 (32%)
Query: 9 LVALNESSCIGTKMLI-AYYD-------------KSCIIQAI---------MFG--ANPE 43
L+ N+++ + TK LI Y S + +A+ +FG N +
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 44 YLYVD-LTKLYSHIEYIKMFESKQSRDIIDRLEAYIVNPKQNCLDI-KFKIEGTDFQKLV 101
Y + L LY Y + D+I + + LD K +G + +
Sbjct: 168 -DYFEELRDLYQT--YHVLVG-----DLIKFSAETLSELIRTTLDAEKVFTQGLNILE-- 217
Query: 102 WSE----------LCKIPF-----G--SLCSYADVARNIG-RPKSARAV---ANACGQ 138
W E L IP G L Y A+ +G P R+ A Q
Sbjct: 218 WLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Score = 27.7 bits (61), Expect = 2.6
Identities = 15/93 (16%), Positives = 26/93 (27%), Gaps = 40/93 (43%)
Query: 120 ARNI---GRPKS-------ARAVANACG--QNNI--------------PILIPCHRVIRS 153
A+N+ G P+S R G Q+ I P+ P H
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH----- 428
Query: 154 DGSYGGYSSGKYIKETLIKIEQKIVSEKIQVHS 186
S + I + +V + ++
Sbjct: 429 -------SH--LLVPASDLINKDLVKNNVSFNA 452
>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 = 34.5 bits (78), Expect = 0.007
Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 30/55 (54%)
Query: 82 KQNCLDIKFKIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVA-NA 135
KQ +K K++ SL YA SA A+A A
Sbjct: 19 KQA---LK-KLQA-----------------SLKLYA--------DDSAPALAIKA 44
>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 = 0.023
Identities = 20/120 (16%), Positives = 34/120 (28%), Gaps = 33/120 (27%)
Query: 7 TCLVALNESSCIGTKMLIAYYDKSCIIQAIMFG--ANPEYLYVDLTKLYSHIEYIKMFES 64
T + C+ K+ K I + +PE + L KL I+ + S
Sbjct: 164 TWVAL---DVCLSYKVQCKMDFK---IFWLNLKNCNSPETVLEMLQKLLYQID--PNWTS 215
Query: 65 KQSR---------DIIDRLEAYIVNPK-QNCLDI------KFKIEGTDFQKLVWSELCKI 108
+ I L + + +NCL + + CKI
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-------CKI 268
>3noy_A 4-hydroxy-3-methylbut-2-EN-1-YL diphosphate synth; iron-sulfur
protein, non-mevalonate pathway, terpene biosynt
isoprenoid biosynthesis; 2.70A {Aquifex aeolicus}
Length = 366
Score = 32.1 bits (74), Expect = 0.083
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 122 NIGRPKSARAVANACGQNNIPILI 145
NIG+ + R + + + + I
Sbjct: 115 NIGKEEIVREIVEEAKRRGVAVRI 138
>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate,
PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A
{Escherichia coli}
Length = 755
Score = 32.0 bits (72), Expect = 0.12
Identities = 20/132 (15%), Positives = 38/132 (28%), Gaps = 34/132 (25%)
Query: 29 KSCIIQAIMFGANPEYLYVDLTKLYSHIEYIKMFESKQSRDIIDRLEAYIVNPKQNCLDI 88
KS ++ GA P Y+ + Y I I E + +
Sbjct: 256 KSIEQGLMLTGAKPVYMVPSRNR-YGIIGPIYPQEMQPE-------------------TL 295
Query: 89 KFKIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQNNIPILIPCH 148
+ KI + K + + C+Y V N + + + + +
Sbjct: 296 QKKISESPLTKDKAGQKPSYCVVTNCTYDGVCYNA------KEAQDLLEKTSDRLHF--- 346
Query: 149 RVIRSDGSYGGY 160
D ++ GY
Sbjct: 347 -----DEAWYGY 353
>3k8x_A Acetyl-COA carboxylase; transferase, carboxyltransferase, AC
tepraloxydim, ATP-binding, biotin, fatty acid
biosynthesis; HET: B89; 2.30A {Saccharomyces cerevisiae}
PDB: 1w2x_A* 3h0s_A* 3h0j_A* 3h0q_A* 1od2_A* 1od4_A*
3pgq_A* 3tvu_A* 3tv5_A* 3tvw_A* 3tz3_A* 1uyr_A* 1uys_A*
1uyt_A 1uyv_A
Length = 758
Score = 29.1 bits (65), Expect = 1.1
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 127 KSARAVANACGQNNIPILI 145
K+A+A+ + +P++I
Sbjct: 456 KTAQAINDFNNGEQLPMMI 474
>3b49_A LIN2189 protein; BIG 860.1, structural genomics, MCSG, SAD, PSI-2,
protein ST initiative, midwest center for structural
genomics; HET: MSE; 1.60A {Listeria innocua CLIP11262}
Length = 211
Score = 27.8 bits (61), Expect = 1.9
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 52 LYSHIEYIKMFESKQSRDIIDRLEAYIVNPKQNCLDIKFKIEGTDFQKLVWSELCKIP 109
LY+ IKM SK +D ++V P + + K + D +W+ + + P
Sbjct: 56 LYAIAYTIKM--SKMGETRLDGYSDFVVPPLEGFWWSEGKFDLKDRDAWLWTSILRQP 111
>2r4f_A 3-hydroxy-3-methylglutaryl-coenzyme A reductase; oxidoreductase,
cholesterol, biocynthesis, HMG-COA, NADPH, statin,
alternative splicing; HET: RIE; 1.70A {Homo sapiens}
PDB: 2q1l_A* 2q6c_A* 2q6b_A* 3bgl_A* 3cct_A* 3ccw_A*
3ccz_A* 3cd0_A* 3cd5_A* 3cd7_A* 3cda_A* 3cdb_A* 1dqa_A*
1dq9_A* 1dq8_A* 1hw8_A* 1hw9_A* 1hwi_A* 1hwj_A* 1hwk_A*
...
Length = 441
Score = 28.1 bits (62), Expect = 2.2
Identities = 10/48 (20%), Positives = 19/48 (39%)
Query: 91 KIEGTDFQKLVWSELCKIPFGSLCSYADVARNIGRPKSARAVANACGQ 138
++ T + ++ + K GS + + N A+ ACGQ
Sbjct: 285 EVLKTTTEAMIEVNINKNLVGSAMAGSIGGYNAHAANIVTAIYIACGQ 332
>1nx8_A CARC, carbapenem synthase; jelly roll, unknown function; HET: AKG
N7P; 2.30A {Pectobacterium carotovorum} SCOP: b.82.2.8
PDB: 1nx4_A*
Length = 273
Score = 27.7 bits (62), Expect = 2.5
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 54 SHIEYIKMFESKQSRDIIDRLEAYIVNPK 82
S I F +++ L A++ P+
Sbjct: 201 SWEPRIVGFTDHETQAFFQELGAFLKQPR 229
>1zzg_A Glucose-6-phosphate isomerase; structural genomics, riken
structural genomics/PR initiative, RSGI, NPPSFA; 1.95A
{Thermus thermophilus}
Length = 415
Score = 27.1 bits (61), Expect = 3.5
Identities = 2/21 (9%), Positives = 6/21 (28%)
Query: 22 MLIAYYDKSCIIQAIMFGANP 42
L+ + ++ N
Sbjct: 376 WLMQHLMWQTAFLGELWEVNA 396
>1b0z_A Protein (phosphoglucose isomerase); autocrinefactor, neuroleukin,
crystallography motility; 2.30A {Geobacillus
stearothermophilus} SCOP: c.80.1.2 PDB: 1c7q_A* 1c7r_A*
2pgi_A
Length = 445
Score = 26.5 bits (59), Expect = 5.4
Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 12 LNESSCIGTKMLIAYYDKSCIIQAIMFGANP 42
+NE + G ++ +++K+C I + G NP
Sbjct: 383 MNEYT-FG--EMVYFFEKACGISGHLLGVNP 410
>2q8n_A Glucose-6-phosphate isomerase; TM1385, structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative; HET: 2PE; 1.82A {Thermotoga maritima MSB8}
Length = 460
Score = 26.5 bits (59), Expect = 5.7
Identities = 5/21 (23%), Positives = 8/21 (38%)
Query: 22 MLIAYYDKSCIIQAIMFGANP 42
AYY+ + + NP
Sbjct: 404 QFFAYYEAATAFMGYLLEINP 424
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 0.137 0.408
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,822,325
Number of extensions: 162329
Number of successful extensions: 338
Number of sequences better than 10.0: 1
Number of HSP's gapped: 330
Number of HSP's successfully gapped: 26
Length of query: 188
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 100
Effective length of database: 4,244,745
Effective search space: 424474500
Effective search space used: 424474500
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: 54 (24.4 bits)