RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12544
(140 letters)
>3k6m_A Succinyl-COA:3-ketoacid-coenzyme A transferase 1, mitochondrial;
SCOT, COA transferase, dynamic domain, glycerol,
mitochondri transferase; 1.50A {Sus scrofa} PDB: 1m3e_A*
1o9l_A 1ooy_A 2nrc_A 2nrb_A 3oxo_A* 1ooz_A 1ope_A 3dlx_A
Length = 481
Score = 117 bits (294), Expect = 5e-32
Identities = 42/72 (58%), Positives = 53/72 (73%)
Query: 17 PGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCVDLIITEKGK 76
PGK+VKGMGGAMDLV++ TKVVVTMEH+ + HKI+ +C+LPLTGKQCV+ IITEK
Sbjct: 377 PGKLVKGMGGAMDLVSSAKTKVVVTMEHSAKGNAHKIMEKCTLPLTGKQCVNRIITEKAV 436
Query: 77 MVKGMGGAMDLV 88
+ L+
Sbjct: 437 FDVDRKKGLTLI 448
Score = 112 bits (281), Expect = 3e-30
Identities = 40/57 (70%), Positives = 49/57 (85%)
Query: 75 GKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCVDLIITEK 131
GK+VKGMGGAMDLV++ TKVVVTMEH+ + HKI+ +C+LPLTGKQCV+ IITEK
Sbjct: 378 GKLVKGMGGAMDLVSSAKTKVVVTMEHSAKGNAHKIMEKCTLPLTGKQCVNRIITEK 434
>3rrl_B Succinyl-COA:3-ketoacid-coenzyme A transferase SU;
MCSG,PSI-biology, structural genomics, midwest center
for ST genomics; 2.29A {Helicobacter pylori} PDB: 3cdk_B
Length = 207
Score = 94.8 bits (236), Expect = 2e-25
Identities = 32/59 (54%), Positives = 39/59 (66%), Gaps = 1/59 (1%)
Query: 17 PGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCVDLIITEKG 75
P K++KGMGGAMDLV KV+V MEH + G K+ ECSLPLTGK V +IT+
Sbjct: 115 PKKLIKGMGGAMDLVHGA-KKVIVIMEHCNKYGESKVKKECSLPLTGKGVVHQLITDLA 172
Score = 91.3 bits (227), Expect = 4e-24
Identities = 31/57 (54%), Positives = 38/57 (66%), Gaps = 1/57 (1%)
Query: 75 GKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCVDLIITEK 131
K++KGMGGAMDLV KV+V MEH + G K+ ECSLPLTGK V +IT+
Sbjct: 116 KKLIKGMGGAMDLVHGA-KKVIVIMEHCNKYGESKVKKECSLPLTGKGVVHQLITDL 171
>2ahu_A Putative enzyme YDIF; COA transferase, glutamyl thioester,
structural genomi montreal-kingston bacterial structural
genomics initiative; 1.90A {Escherichia coli} SCOP:
c.124.1.3 c.124.1.2 PDB: 2ahv_A* 2ahw_A*
Length = 531
Score = 60.4 bits (147), Expect = 7e-12
Identities = 17/79 (21%), Positives = 30/79 (37%), Gaps = 22/79 (27%)
Query: 17 PGKMVKGMGGAMDLVAAPS------TKVVVTMEHNTRDGGHKILPECS----------LP 60
GK++ G GG +D+ A T +++ DG I+ E +
Sbjct: 393 NGKIM-GTGGFIDISATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEIT 451
Query: 61 LTGKQCVD-----LIITEK 74
+GK ++ ITE+
Sbjct: 452 FSGKIALERGLDVRYITER 470
Score = 58.5 bits (142), Expect = 3e-11
Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 21/78 (26%)
Query: 75 GKMVKGMGGAMDLVAAPS------TKVVVTMEHNTRDGGHKILPECS----------LPL 118
+ G GG +D+ A T +++ DG I+ E +
Sbjct: 393 NGKIMGTGGFIDISATSKKIIFCGTLTAGSLKTEIADGKLNIVQEGRVKKFIRELPEITF 452
Query: 119 TGKQCVD-----LIITEK 131
+GK ++ ITE+
Sbjct: 453 SGKIALERGLDVRYITER 470
>1poi_B Glutaconate coenzyme A-transferase; COA, glutamate, protein
fermentation; 2.50A {Acidaminococcus fermentans} SCOP:
c.124.1.3
Length = 260
Score = 58.4 bits (141), Expect = 2e-11
Identities = 20/87 (22%), Positives = 29/87 (33%), Gaps = 15/87 (17%)
Query: 15 PDPGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECS------------LPLT 62
P G GGA + ++ M+H R +KI S L L
Sbjct: 124 HHPKTRFTGSGGANGIATYS--NTIIMMQHEKRRFMNKIDYVTSPGWIDGPGGRERLGLP 181
Query: 63 GKQCVDLIITEKGKM-VKGMGGAMDLV 88
G L++T+KG + M L
Sbjct: 182 GDVGPQLVVTDKGILKFDEKTKRMYLA 208
Score = 51.9 bits (124), Expect = 5e-09
Identities = 16/69 (23%), Positives = 24/69 (34%), Gaps = 14/69 (20%)
Query: 75 GKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECS------------LPLTGKQ 122
G GGA + ++ M+H R +KI S L L G
Sbjct: 127 KTRFTGSGGANGIATYS--NTIIMMQHEKRRFMNKIDYVTSPGWIDGPGGRERLGLPGDV 184
Query: 123 CVDLIITEK 131
L++T+K
Sbjct: 185 GPQLVVTDK 193
>2hj0_A Putative citrate lyase, ALFA subunit; alpha beta protein.,
structural genomics, PSI-2, protein STR initiative; HET:
CIT; 2.70A {Streptococcus mutans}
Length = 519
Score = 47.6 bits (113), Expect = 2e-07
Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 2/68 (2%)
Query: 8 GNSADTTPDPGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCV 67
N T G + GG D A +V++ R + + + +T V
Sbjct: 381 FNVNVMTGSDGVIRGASGGHCDTAFAAKMSLVIS--PLVRGRIPTFVDKVNTVITPGTSV 438
Query: 68 DLIITEKG 75
D+++TE G
Sbjct: 439 DVVVTEVG 446
Score = 42.6 bits (100), Expect = 1e-05
Identities = 12/56 (21%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 75 GKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCVDLIITE 130
G + GG D A +V++ R + + + +T VD+++TE
Sbjct: 391 GVIRGASGGHCDTAFAAKMSLVIS--PLVRGRIPTFVDKVNTVITPGTSVDVVVTE 444
>2g39_A Acetyl-COA hydrolase; coenzyme A transferase, structural G PSI,
protein structure initiative, midwest center for struc
genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP:
c.124.1.2 c.124.1.2
Length = 497
Score = 37.5 bits (87), Expect = 6e-04
Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 20/79 (25%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMD--------LVAAPSTKVVVTMEHNTRDGGH-KIL 111
+ G + KM+ G+GG+ D + S + G ++
Sbjct: 362 IYGNVNSTHV--GGTKMMNGIGGSGDFARNAHLAIFVTKSI---------AKGGNISSVV 410
Query: 112 PECSLPLTGKQCVDLIITE 130
P S + VD+++TE
Sbjct: 411 PMVSHVDHTEHDVDILVTE 429
Score = 36.3 bits (84), Expect = 0.002
Identities = 18/77 (23%), Positives = 30/77 (38%), Gaps = 18/77 (23%)
Query: 8 GNSADTTPDPGKMVKGMGGAMD--------LVAAPSTKVVVTMEHNTRDGGH-KILPECS 58
GN T KM+ G+GG+ D + S + G ++P S
Sbjct: 364 GNVNSTHVGGTKMMNGIGGSGDFARNAHLAIFVTKSI---------AKGGNISSVVPMVS 414
Query: 59 LPLTGKQCVDLIITEKG 75
+ VD+++TE+G
Sbjct: 415 HVDHTEHDVDILVTEQG 431
>1xr4_A Putative citrate lyase alpha chain/citrate-ACP TR; the midwest
center for structural genomics, MCSG, structural
genomics; 2.37A {Salmonella typhimurium} SCOP: c.124.1.2
c.124.1.2
Length = 509
Score = 36.9 bits (85), Expect = 0.001
Identities = 13/68 (19%), Positives = 24/68 (35%), Gaps = 2/68 (2%)
Query: 8 GNSADTTPDPGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTGKQCV 67
N T G + GG D A ++ R ++ + +T V
Sbjct: 377 FNVNVMTGSNGVLRGASGGHSDTAAGADLTIITA--PLVRGRIPCVVEKVLTTVTPGASV 434
Query: 68 DLIITEKG 75
D+++T+ G
Sbjct: 435 DVLVTDHG 442
Score = 33.4 bits (76), Expect = 0.018
Identities = 11/70 (15%), Positives = 23/70 (32%), Gaps = 4/70 (5%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPLTG 120
+ V G + GG D A ++ R ++ + +T
Sbjct: 375 VNFNVNVMTGSN--GVLRGASGGHSDTAAGADLTIITA--PLVRGRIPCVVEKVLTTVTP 430
Query: 121 KQCVDLIITE 130
VD+++T+
Sbjct: 431 GASVDVLVTD 440
>2nvv_A Acetyl-COA hydrolase/transferase family protein; alpha beta
protein, structural genomics, PSI-2, protein STRU
initiative; 2.70A {Porphyromonas gingivalis}
Length = 506
Score = 36.7 bits (85), Expect = 0.001
Identities = 18/77 (23%), Positives = 29/77 (37%), Gaps = 18/77 (23%)
Query: 8 GNSADTTPDPGKMVKGMGGAMD--------LVAAPSTKVVVTMEHNTRDGGH-KILPECS 58
GN T +M+ G+GG+ D + PS +DG +P +
Sbjct: 360 GNINSTHVSGTRMMNGIGGSGDFTRNSYVSIFTTPSV---------MKDGKISSFVPMVA 410
Query: 59 LPLTGKQCVDLIITEKG 75
+ V +II+E G
Sbjct: 411 HHDHSEHSVKVIISEWG 427
Score = 36.7 bits (85), Expect = 0.001
Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 20/79 (25%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMD--------LVAAPSTKVVVTMEHNTRDGGH-KIL 111
+ G + +M+ G+GG+ D + PS +DG +
Sbjct: 358 IFGNINSTHV--SGTRMMNGIGGSGDFTRNSYVSIFTTPSV---------MKDGKISSFV 406
Query: 112 PECSLPLTGKQCVDLIITE 130
P + + V +II+E
Sbjct: 407 PMVAHHDHSEHSVKVIISE 425
>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 = 35.7 bits (81), Expect = 0.001
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 73 EKGKMVKGMGGAMDLVA---APSTKVVVTME 100
EK + +K + ++ L A AP+ + TME
Sbjct: 18 EK-QALKKLQASLKLYADDSAPALAIKATME 47
Score = 31.8 bits (71), Expect = 0.039
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 19 KMVKGMGGAMDLVA---APSTKVVVTME 43
+ +K + ++ L A AP+ + TME
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATME 47
>3qli_A Coenzyme A transferase; COEN transferase; 1.90A {Yersinia pestis}
PDB: 3qlk_A 3s8d_A
Length = 455
Score = 35.5 bits (82), Expect = 0.003
Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 9/76 (11%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KILPECS 115
LTG + + G GG +D V A+ + ++ G +I+P
Sbjct: 343 LTGACNSEHM---LGHQYSASGGQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRID 399
Query: 116 LPLT-GKQCVDLIITE 130
P+T + I+TE
Sbjct: 400 GPVTTPRIDTHYIVTE 415
Score = 34.7 bits (80), Expect = 0.006
Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 6/64 (9%)
Query: 18 GKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KILPECSLPLT-GKQCVDLII 71
G GG +D V A+ + ++ G +I+P P+T + I+
Sbjct: 354 GHQYSASGGQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRIDGPVTTPRIDTHYIV 413
Query: 72 TEKG 75
TE G
Sbjct: 414 TEFG 417
>3d3u_A 4-hydroxybutyrate COA-transferase; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; 2.80A
{Porphyromonas gingivalis}
Length = 439
Score = 34.3 bits (79), Expect = 0.009
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 8/66 (12%)
Query: 18 GKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KILPECSLP---LTGKQCVDL 69
+ G GG +D + + ++ + G +I+P TG+ VD
Sbjct: 329 YEQFSGSGGQVDFLRGAKRSKGGISIMAFPSTAKKGTESRIVPILKEGACVTTGRNEVDY 388
Query: 70 IITEKG 75
++TE G
Sbjct: 389 VVTEYG 394
>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 = 0.010
Identities = 26/172 (15%), Positives = 49/172 (28%), Gaps = 74/172 (43%)
Query: 15 PDPGKMVKGMGGA----MDLVAAPSTKVV---------VTMEHNTRDGG---------HK 52
P ++ G+ G+ + L S KV + +++ ++
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208
Query: 53 ILPE--------CSLPLT----------------GKQCVDLII---TEKGKMVKGMGGAM 85
I P ++ L + C L++ + K A
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC--LLVLLNVQNAKAWN----AF 262
Query: 86 DLVAAPSTKVVVTMEHNTRDGG-----------HKILPECSLPLTGKQCVDL 126
+L S K+++T TR H L S+ LT + L
Sbjct: 263 NL----SCKILLT----TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
>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 = 34.3 bits (78), Expect = 0.010
Identities = 28/153 (18%), Positives = 45/153 (29%), Gaps = 65/153 (42%)
Query: 2 FNILRGGNSADTTPDPGKMVKGMGGAMDLVAAPSTKVVVTMEHNTRDGGHKILPECSLPL 61
NIL + TPD L++ P + S PL
Sbjct: 213 LNILEWLENPSNTPDKD----------YLLSIP---I-------------------SCPL 240
Query: 62 TG-KQCVDLIITEK------GKMVKGMGGA----MDLVAAPSTKVVVTM-------EHNT 103
G Q ++T K G++ + GA LV A V + +
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA----VAIAETDSWESFFVSV 296
Query: 104 RD--------G--GHKILPECSLPLTG-KQCVD 125
R G ++ P SLP + + ++
Sbjct: 297 RKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE 329
Score = 31.6 bits (71), Expect = 0.073
Identities = 19/90 (21%), Positives = 26/90 (28%), Gaps = 38/90 (42%)
Query: 79 KGMGGAMDL-----VAA-------------------------PSTKVVVTMEHNTRDGGH 108
+GMG MDL A P + H + G
Sbjct: 1629 QGMG--MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTI----HFGGEKGK 1682
Query: 109 KILPECSLPLTGKQCVD-LIITEKRFDRGN 137
+I E + + VD + TEK F N
Sbjct: 1683 RIR-ENYSAMIFETIVDGKLKTEKIFKEIN 1711
Score = 28.1 bits (62), Expect = 1.3
Identities = 13/86 (15%), Positives = 29/86 (33%), Gaps = 24/86 (27%)
Query: 16 DPGKMVKGMGGA-----MDLVAAPSTKVVVTME---HNTRD-----GGHK----ILPECS 58
+PG++ ++ V + +V E +N + G +
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGKRTGWLV---EIVNYNVENQQYVAAGDLRALDTVTNV- 1868
Query: 59 LPLTGKQCVDLI-ITEKGKM--VKGM 81
L Q +D+I + + + V+G
Sbjct: 1869 LNFIKLQKIDIIELQKSLSLEEVEGH 1894
>2oas_A ATOA, 4-hydroxybutyrate coenzyme A transferase; alpha beta protein,
structural genomics, PSI-2, protein STRU initiative;
HET: COA; 2.40A {Shewanella oneidensis}
Length = 436
Score = 33.9 bits (78), Expect = 0.011
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 11/78 (14%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KI---LP 112
LTG+ C D I K+ G+GG MD + + + V+ + G +I L
Sbjct: 312 LTGQVCADSI---GTKIYSGVGGQMDFIRGAGLSEGGRSVIALPSTAAGGRISRIASVLS 368
Query: 113 ECSLPLTGKQCVDLIITE 130
+ +T + V I+TE
Sbjct: 369 PGAGVVTTRAHVHYIVTE 386
Score = 33.5 bits (77), Expect = 0.015
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 8/66 (12%)
Query: 18 GKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KI---LPECSLPLTGKQCVDL 69
K+ G+GG MD + + + V+ + G +I L + +T + V
Sbjct: 323 TKIYSGVGGQMDFIRGAGLSEGGRSVIALPSTAAGGRISRIASVLSPGAGVVTTRAHVHY 382
Query: 70 IITEKG 75
I+TE G
Sbjct: 383 IVTEYG 388
>3eh7_A 4-hydroxybutyrate COA-transferase; citrate lyase, structural
genomics, PSI-2, protein structure initiative; HET: MSE;
2.05A {Porphyromonas gingivalis}
Length = 434
Score = 33.5 bits (77), Expect = 0.015
Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 11/78 (14%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KILPECS 115
L G+ + I K G GG +D V + + K ++ + ++G +I+P +
Sbjct: 321 LMGQVVSECI---GSKQFSGTGGQVDYVRGAAWSKNGKSIMAIPSTAKNGTASRIVPIIA 377
Query: 116 LP---LTGKQCVDLIITE 130
T + VD ++TE
Sbjct: 378 EGAAVTTLRNEVDYVVTE 395
Score = 32.3 bits (74), Expect = 0.036
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 18 GKMVKGMGGAMDLV----AAPSTKVVVTMEHNTRDGGH-KILPECSLP---LTGKQCVDL 69
K G GG +D V + + K ++ + ++G +I+P + T + VD
Sbjct: 332 SKQFSGTGGQVDYVRGAAWSKNGKSIMAIPSTAKNGTASRIVPIIAEGAAVTTLRNEVDY 391
Query: 70 IITEKG 75
++TE G
Sbjct: 392 VVTEYG 397
>3gk7_A 4-hydroxybutyrate COA-transferase; alpha/beta protein; HET: SPD;
1.85A {Clostridium aminobutyricum} PDB: 3qdq_A*
Length = 448
Score = 30.1 bits (68), Expect = 0.18
Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 16/83 (19%)
Query: 61 LTGKQCVDLIITEKGKMVKGMGGAMDLVAA------PSTKVVVTMEHNTRDG-GHKI--- 110
G+ D I K G+GG +D V K ++ M + G I
Sbjct: 317 FMGQIVSDSI---GTKQFSGVGGQVDFVRGASMSIDGKGKAIIAMPSVAKKKDGSMISKI 373
Query: 111 ---LPECSLPLTGKQCVDLIITE 130
+ + T + D ++TE
Sbjct: 374 VPFIDHGAAVTTSRNDADYVVTE 396
Score = 29.7 bits (67), Expect = 0.26
Identities = 17/78 (21%), Positives = 28/78 (35%), Gaps = 14/78 (17%)
Query: 18 GKMVKGMGGAMDLVAA------PSTKVVVTMEHNTRDG-GHKI------LPECSLPLTGK 64
K G+GG +D V K ++ M + G I + + T +
Sbjct: 328 TKQFSGVGGQVDFVRGASMSIDGKGKAIIAMPSVAKKKDGSMISKIVPFIDHGAAVTTSR 387
Query: 65 QCVDLIITEKGK-MVKGM 81
D ++TE G +KG
Sbjct: 388 NDADYVVTEYGIAEMKGK 405
>1r57_A Conserved hypothetical protein; GCN5, N-acetyltransferase,
structural genomics, PSI, protein structure initiative;
NMR {Staphylococcus aureus} SCOP: d.108.1.1 PDB: 2h5m_A*
Length = 102
Score = 28.2 bits (63), Expect = 0.41
Identities = 15/82 (18%), Positives = 27/82 (32%), Gaps = 15/82 (18%)
Query: 41 TMEHNTRDG-------GHKILPECSLPLTGKQCVDLIITEKGKMVKGMGGAMDLVAAPST 93
+E + + L E + +++ T + G G L+ A
Sbjct: 3 NLEIKQGENKFYIGDDENNALAEITYRFVDNNEINIDHTGVSDELGGQGVGKKLLKA--- 59
Query: 94 KVVVTMEHNTRDGGHKILPECS 115
+EH R+ KI+ CS
Sbjct: 60 ----VVEH-ARENNLKIIASCS 76
>3fhd_A ORF 37; enase like PD-(D/E)XK superfamily, hydrolase; 1.85A {Human
herpesvirus 8 type M} PDB: 3pov_A*
Length = 508
Score = 26.7 bits (58), Expect = 3.7
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 6/37 (16%)
Query: 100 EHNTRDGGHKILPECSLPLTGKQCVDLIITEKRFDRG 136
N GG + P +P LI+T F RG
Sbjct: 439 PVNCTIGGDALDPHVEIPTL------LIVTPVYFPRG 469
>1te0_A Protease DEGS; two domains, serine protease, PDZ, alpha-beta
protein, hydro; 2.20A {Escherichia coli} SCOP: b.36.1.4
b.47.1.1 PDB: 3gdv_A* 3gcn_A* 3gds_A* 3gdu_A* 3gco_A*
1sot_A 1soz_A 1vcw_A 2r3y_A
Length = 318
Score = 25.6 bits (57), Expect = 7.1
Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 68 DLIITEKGKMVKGMGGAMDLVA--APSTKVVVTMEHNTRDGGHKILP 112
DLII+ K MD VA P + + V + RD L
Sbjct: 266 DLIISVDNKPAISALETMDQVAEIRPGSVIPVVVM---RDDKQLTLQ 309
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 25.0 bits (54), Expect = 9.5
Identities = 11/60 (18%), Positives = 20/60 (33%), Gaps = 19/60 (31%)
Query: 96 VVTMEHNTRDGGHK--------ILPECSLPLT--------GKQ-CVD--LIITEKRFDRG 136
++T E + G + PEC + G C L++++K D
Sbjct: 1 MMTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLVLSDKLVDTR 60
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
0.318 0.137 0.414
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,162,158
Number of extensions: 122101
Number of successful extensions: 241
Number of sequences better than 10.0: 1
Number of HSP's gapped: 228
Number of HSP's successfully gapped: 48
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (23.7 bits)