RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17045
(211 letters)
>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 = 43.7 bits (102), Expect = 2e-05
Identities = 32/228 (14%), Positives = 73/228 (32%), Gaps = 40/228 (17%)
Query: 4 VEKEEALCLQKEFEW--VINKEVHIILKQLQTILVECSRRFPLTLFGNEGPYKSDKIILA 61
+ E +K F+ V HI ++ L+L + +++
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHI------PTIL-------LSLIWFDVIKSDVMVVVN 409
Query: 62 SSQDTLKTIVNLNGD--SISFADIHLKIHRHHQHQTQTYKTSI------LKEHPWKLHQI 113
++V +IS I+L++ +++ +++ + L
Sbjct: 410 KLHK--YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 114 QDAGNHLQFALYHIDNVDDGYQFKSSEEVLHTLDNILNCLQ---RGRTSLIVPRKRTIDD 170
+H+ N++ + V LD L+ R ++ ++
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVF--LD--FRFLEQKIRHDSTAWNASGSILNT 523
Query: 171 LMKSRNMKS-LTP--PLPEDLA---ISFYIQ-SHKLICAAYQLSNVQI 211
L + + K + P E L + F + LIC+ Y ++I
Sbjct: 524 LQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY-TDLLRI 570
Score = 37.5 bits (86), Expect = 0.002
Identities = 30/200 (15%), Positives = 61/200 (30%), Gaps = 69/200 (34%)
Query: 28 LKQLQTILVECSRRFPLTLFGNEGPYKSDKIILA-------------------------- 61
+L+ L+E + + G G K+ +A
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKT---WVALDVCLSYKVQCKMDFKIFWLNLKNCN 193
Query: 62 SSQDTLKTIVNL----NGDSISFADIHLKIHRHHQHQTQTYKTSILKEHPWKLHQIQDAG 117
S + L+ + L + + S +D I + H Q +LK P++
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYEN------- 245
Query: 118 NHLQFALYHIDNVDDGYQFKSSEEVLHTLDNILNCLQRGRTSLIVPRKRTIDDLMKSRNM 177
L + NV + + + + L+C + L+ R + + D + +
Sbjct: 246 -----CLLVLLNV-------QNAKAWNAFN--LSC----KI-LLTTRFKQVTDFLSAATT 286
Query: 178 K---------SLTPPLPEDL 188
+LTP + L
Sbjct: 287 THISLDHHSMTLTPDEVKSL 306
Score = 28.7 bits (63), Expect = 2.0
Identities = 43/269 (15%), Positives = 82/269 (30%), Gaps = 78/269 (28%)
Query: 4 VEKEEALCLQKEFEWVINKEVHIILKQLQTILVECSRRFPLTLFGNEGPYKSDKIILASS 63
+E + L Q + W + +K + RR L ++ PY++ ++L +
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR----LLKSK-PYENCLLVLLNV 253
Query: 64 QD------------TLKTIVNLN-GDSISFADI-HLKIHRHHQHQTQTYKTSIL------ 103
Q+ L T D +S A H+ + H T S+L
Sbjct: 254 QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 104 ----------KEHPWKLHQIQDAGNHLQFALYHIDNVDDGYQFKSSEEVLHTLDNILNCL 153
+P +L I ++ L DN ++ + +++ +++ LN L
Sbjct: 314 RPQDLPREVLTTNPRRLSII---AESIRDGLATWDN----WKHVNCDKLTTIIESSLNVL 366
Query: 154 ----QRGR-TSLIV-------PRK-----------RTIDDLMKSRNMKSLTPPLPEDLAI 190
R L V P + ++ + SL P++ I
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 191 SFY-------------IQSHKLICAAYQL 206
S H+ I Y +
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNI 455
Score = 27.9 bits (61), Expect = 3.4
Identities = 21/133 (15%), Positives = 47/133 (35%), Gaps = 35/133 (26%)
Query: 88 HRHHQHQTQTYKTSILKEHPWKLHQIQDAGNHLQ------FALYHIDNVDDGYQFKSSEE 141
H HH H ++T + +Q +D + + F + D S EE
Sbjct: 1 HHHHHH--MDFETGEHQ------YQYKDILSVFEDAFVDNFDCKDVQ--DMPKSILSKEE 50
Query: 142 VLHTL---------DNILNCLQRGRTSLIVPRKRTIDDLMKSRNMKSLTPPL------PE 186
+ H + + L + ++ ++ ++++++ N K L P+ P
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMV---QKFVEEVLR-INYKFLMSPIKTEQRQPS 106
Query: 187 DLAISFYIQSHKL 199
+ + Q +L
Sbjct: 107 MMTRMYIEQRDRL 119
>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 = 31.9 bits (72), Expect = 0.16
Identities = 22/152 (14%), Positives = 50/152 (32%), Gaps = 42/152 (27%)
Query: 28 LKQLQTILVECSRRFP------LTLFGNEGPYKSDKIILASSQDTLKTIV---------- 71
+Q+Q + + + P ++L N G ++++ +L +
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLV-N-GA---KNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 72 NLNGDSISFADIHLKI-----------HRHHQHQTQTYKTSILKEHPWKLHQIQDAGNHL 120
L+ I F++ LK H H + ++ + K + + +
Sbjct: 401 GLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA----SDLINKDLVK-NNVSFNAKDI 455
Query: 121 QFALYHIDNVDDGYQFKS-SEEVLHTL-DNIL 150
Q +Y DG + S + + D I+
Sbjct: 456 QIPVYD---TFDGSDLRVLSGSISERIVDCII 484
Score = 29.2 bits (65), Expect = 1.0
Identities = 9/85 (10%), Positives = 32/85 (37%), Gaps = 19/85 (22%)
Query: 121 QFALYHIDNVDDGYQFKSSEEVLHTLDNILNCLQRGRTSLIVPRKRTIDDLMKSRNMKSL 180
+F L ++ ++ + + ++VL+ L + ++ ++ +L
Sbjct: 63 KF-LGYVSSLVEPSKVGQFDQVLNLC---LTEFEN--------------CYLEGNDIHAL 104
Query: 181 TPPLPEDLAISFYIQSHKLICAAYQ 205
L ++ + +++ +LI
Sbjct: 105 AAKLLQENDTTL-VKTKELIKNYIT 128
Score = 27.3 bits (60), Expect = 4.2
Identities = 18/88 (20%), Positives = 24/88 (27%), Gaps = 33/88 (37%)
Query: 81 ADIHLKIHRHHQHQTQTYKTSIL---KEHPWKL---------------------HQIQDA 116
AD H K TY SIL +P L I D
Sbjct: 1649 ADNHFK---------DTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG 1699
Query: 117 GNHLQFALYHIDNVDDGYQFKSSEEVLH 144
+ I+ Y F+S + +L
Sbjct: 1700 KLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
>1m0u_A GST2 gene product; flight muscle protein, sigma, transferase; HET:
GSH; 1.75A {Drosophila melanogaster} SCOP: a.45.1.1
c.47.1.5
Length = 249
Score = 30.5 bits (69), Expect = 0.32
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 73 LNGDSISFADIHLKIHRHHQHQTQTYKTSILKEHPWKLHQIQDA 116
L +++AD++ + K +L+ +P L + DA
Sbjct: 190 LALGKLTWADVYF--AGITDYMNYMVKRDLLEPYP-ALRGVVDA 230
>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 = 28.3 bits (63), Expect = 2.5
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 25/68 (36%)
Query: 9 ALCLQKEFEWVINKEVHIILKQLQTILVECSRRFPLT----LFGNEGPYKSDKIILASSQ 64
+ QK + + +IL P++ FG +G Y K+
Sbjct: 606 CVKKQKSARGIETRPAQVIL--------------PMSPNHGTFGGDGMYSESKL------ 645
Query: 65 DTLKTIVN 72
+L+T+ N
Sbjct: 646 -SLETLFN 652
>3lu0_A DNA-directed RNA polymerase subunit alpha; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_A
Length = 329
Score = 27.4 bits (62), Expect = 3.0
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 9/38 (23%)
Query: 150 LNCLQRG--RT--SLIVPRKRTIDDLMKSRNM--KSLT 181
NCL+ L+ +RT +L+K+ N+ KSLT
Sbjct: 267 ANCLKAEAIHYIGDLV---QRTEVELLKTPNLGKKSLT 301
>2a6h_A DNA-directed RNA polymerase alpha chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: d.74.3.1
d.181.1.1 PDB: 1smy_A* 1zyr_A* 1iw7_A* 2a69_A* 2a6e_A
2a68_A* 2be5_A* 2cw0_A 2o5i_A 2o5j_A* 2ppb_A* 3aoh_A*
3aoi_A* 3dxj_A* 3eql_A* 1i6v_A* 1ynj_A* 1l9z_A 1l9u_A*
1ynn_A* ...
Length = 315
Score = 27.5 bits (62), Expect = 3.2
Identities = 7/38 (18%), Positives = 15/38 (39%), Gaps = 9/38 (23%)
Query: 150 LNCLQRG--RT--SLIVPRKRTIDDLMKSRNM--KSLT 181
L+ L+ + +L+ + DL + +SL
Sbjct: 266 LHSLKEEGIESVRALL---ALNLKDLKNIPGIGERSLE 300
>3gtu_B Glutathione S-transferase; conjugation, detoxification, cytosolic,
heterodimer; 2.80A {Homo sapiens} SCOP: a.45.1.1
c.47.1.5
Length = 224
Score = 27.1 bits (60), Expect = 3.7
Identities = 8/44 (18%), Positives = 13/44 (29%), Gaps = 4/44 (9%)
Query: 73 LNGDSISFADIHLKIHRHHQHQTQTYKTSILKEHPWKLHQIQDA 116
G+ ++F D Q + + L E P L
Sbjct: 151 FAGEKLTFVDFLT---YDILDQNRIFDPKCLDEFP-NLKAFMCR 190
>1jlj_A Gephyrin; globular alpha/beta fold, structural protein; 1.60A {Homo
sapiens} SCOP: c.57.1.1 PDB: 1ihc_A
Length = 189
Score = 26.9 bits (60), Expect = 3.7
Identities = 6/21 (28%), Positives = 10/21 (47%)
Query: 73 LNGDSISFADIHLKIHRHHQH 93
L + ++H + H HH H
Sbjct: 169 LRDAIVKVKEVHDRSHHHHHH 189
>3cc1_A BH1870 protein, putative alpha-N-acetylgalactosaminidase;
structural genomic center for structural genomics, JCSG;
HET: MSE PGE PG4 P33; 2.00A {Bacillus halodurans c-125}
Length = 433
Score = 27.5 bits (60), Expect = 4.0
Identities = 11/64 (17%), Positives = 21/64 (32%), Gaps = 3/64 (4%)
Query: 118 NHLQFALYHIDNVDDGYQFKSSEEVLHTLDNILNCLQRGRTSLIVPRKRTIDDLMKSRNM 177
NHL+ + VD + ++ + L + GR ++P
Sbjct: 40 NHLKKYGWEYIVVDIQWYEPTANSSAYNPFAPLCMDEYGR---LLPATNRFPSAKNGAGF 96
Query: 178 KSLT 181
K L+
Sbjct: 97 KPLS 100
>1i1r_B Viral IL-6; cytokine/receptor complex, GP130; 2.40A {Human
herpesvirus 8} SCOP: a.26.1.1
Length = 181
Score = 26.4 bits (57), Expect = 5.4
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 12 LQKEFEWVINKEVHIILKQLQTILVECSRRFPLTLFGNEGPYKSDK 57
LQ WV + +L ++ + R L + P DK
Sbjct: 138 LQGLKYWVRHFASFYVLSAMEKFAGQAVR--VLDSIPDVTPDVHDK 181
>1z3e_B DNA-directed RNA polymerase alpha chain; bacterial transcription
regulation, disulfide stress; 1.50A {Bacillus subtilis}
SCOP: a.60.3.1 PDB: 3ihq_B
Length = 73
Score = 24.9 bits (55), Expect = 6.3
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 150 LNCLQRGRTSLI---VPRKRTIDDLMKSRNM--KSLT 181
NCL+R + + +T +D+MK RN+ KSL
Sbjct: 21 YNCLKRAGINTVQELA--NKTEEDMMKVRNLGRKSLE 55
>1gsu_A GST, CGSTM1-1, class-MU glutathione S-transferase; detoxification
enzyme, S-hexyl glutathione; HET: GTX; 1.94A {Gallus
gallus} SCOP: a.45.1.1 c.47.1.5 PDB: 1c72_A*
Length = 219
Score = 26.3 bits (58), Expect = 6.7
Identities = 5/35 (14%), Positives = 10/35 (28%), Gaps = 3/35 (8%)
Query: 73 LNGDSISFADIHLKIHRHHQHQTQTYKTSILKEHP 107
GD ++F D Q + + +
Sbjct: 147 FVGDKLTFVDFLAY---DVLDQQRMFVPDCPELQG 178
>3gfk_B DNA-directed RNA polymerase subunit alpha; protein-protein complex,
cytoplasm, redox-active center, stress response,
transcription; 2.30A {Bacillus subtilis}
Length = 79
Score = 24.9 bits (55), Expect = 7.2
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 150 LNCLQRGRTSLI---VPRKRTIDDLMKSRNM--KSLT 181
NCL+R + + +T +D+MK RN+ KSL
Sbjct: 28 YNCLKRAGINTVQELA--NKTEEDMMKVRNLGRKSLE 62
>1trb_A Thioredoxin reductase; oxidoreductase(flavoenzyme); HET: FAD; 2.00A
{Escherichia coli} SCOP: c.3.1.5 c.3.1.5 PDB: 1cl0_A*
1f6m_A* 1tdf_A* 1tde_A*
Length = 320
Score = 26.3 bits (59), Expect = 7.9
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 36 VECSRRFPLTLFGNEGPYKSDKIILA 61
V+ R P L G+ G Y D +I+A
Sbjct: 87 VDLQNR-PFRLNGDNGEYTCDALIIA 111
>2cvd_A Glutathione-requiring prostaglandin D synthase;
glutathione-S-transferase, isomerase; HET: GSH HQL;
1.45A {Homo sapiens} SCOP: a.45.1.1 c.47.1.5 PDB:
1iyi_A* 1v40_A* 1iyh_A* 3vi5_A* 3vi7_A* 2vcq_A* 2vcw_A*
2vcx_A* 2vcz_A* 2vd0_A* 2vd1_A* 3kxo_A* 3ee2_A* 1pd2_1*
Length = 198
Score = 26.2 bits (58), Expect = 8.2
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 73 LNGDSISFADIHLKIHRHHQHQTQTYKTSILKEHP 107
L G S+++AD + +K +L HP
Sbjct: 140 LIGMSVTWADFYW---EICSTTLLVFKPDLLDNHP 171
>1vdc_A NTR, NADPH dependent thioredoxin reductase; hypothetical protein,
redox-active center, oxidoreductase, D oxidoreductase;
HET: FAD; 2.50A {Arabidopsis thaliana} SCOP: c.3.1.5
c.3.1.5 PDB: 2whd_A*
Length = 333
Score = 26.4 bits (59), Expect = 8.8
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 36 VECSRRFPLTLFGNEGPYKSDKIILA 61
V+ S + P LF + +D +ILA
Sbjct: 95 VDFSSK-PFKLFTDSKAILADAVILA 119
>2ws2_A NU-class GST, glutathione S-transferase; parasite, nematode; 2.01A
{Haemonchus contortus}
Length = 204
Score = 25.8 bits (57), Expect = 9.4
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 73 LNGDSISFADIHLKIHRHHQHQTQTYKTSILKEHPWKLHQIQDA 116
L GDS++FAD+++ + + + P ++ +
Sbjct: 148 LVGDSLTFADLYV-----AEMGFTEHYPKLYDGFP-EVKAHAEK 185
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
0.320 0.135 0.397
Gapped
Lambda K H
0.267 0.0848 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,116,439
Number of extensions: 172503
Number of successful extensions: 445
Number of sequences better than 10.0: 1
Number of HSP's gapped: 442
Number of HSP's successfully gapped: 34
Length of query: 211
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 122
Effective length of database: 4,216,824
Effective search space: 514452528
Effective search space used: 514452528
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 (24.7 bits)