RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2911
(234 letters)
>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 = 57.8 bits (139), Expect = 7e-10
Identities = 45/232 (19%), Positives = 75/232 (32%), Gaps = 78/232 (33%)
Query: 28 LTTAPFSF---ALDQFG-FGTSGKVGPLGRKTPVSMQIDLVWTCSVGEPLGTGTCPTNNS 83
L + P S + Q + + K+ LG TP ++ L + L +
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTAKL--LG-FTPGELRSYLKGATGHSQGL--------VT 279
Query: 84 ALLMAH------FILNAQKIITN----GTKS-----FSTLESSEFGLSNKFETDFPSSL- 127
A+ +A F ++ +K IT G + ++L S S + PS +
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 128 -ISRVAPEEYQTTIEQINTVLKKTLPVNAKW---LFCG---CVCCCCTLG--CSLWPVVC 178
IS + E+ Q + + N LP + L G V G SL+ +
Sbjct: 340 SISNLTQEQVQDYVNKTN----SHLPAGKQVEISLVNGAKNLVVS----GPPQSLYGLNL 391
Query: 179 -----------------LSKRRFFGVSRPLPKCLNVS-PSVFVKEVETHCPH 212
S+R+ +R LP V+ P F H
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLP----VASP--F------HSHL 431
Score = 29.2 bits (65), Expect = 1.3
Identities = 19/114 (16%), Positives = 28/114 (24%), Gaps = 54/114 (47%)
Query: 18 RDFRKLTTG-----------------KLTTAPFSFALDQFGFGTSGKVGPLGRKTPVSMQ 60
D R L+ T + LD FG G + +G L
Sbjct: 466 SDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILD-FGPGGASGLGVL-----THRN 519
Query: 61 IDLVWTCSVGEPLGTGTCPTNNSALLMAHFILNAQKIITNGTKSFSTLESSEFG 114
D GTG ++I GT + ++G
Sbjct: 520 KD-----------GTGV------------------RVIVAGTLDINP--DDDYG 542
>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 = 35.6 bits (81), Expect = 0.013
Identities = 40/290 (13%), Positives = 74/290 (25%), Gaps = 100/290 (34%)
Query: 2 GKIVVKGPMNETEKFLRDF-----RKLTTGKLTTAPFSFALDQFGFGTSGKVGPLGRKTP 56
I+ + E + F+ +F + + L+ + K
Sbjct: 19 KDIL---SVFE-DAFVDNFDCKDVQDMPKSILSKEEIDHIIMS--------------KDA 60
Query: 57 VSMQIDLVWT-CS---------VGEPLGTGTCPTNNSALLMAHFILNAQKIITNGTKSFS 106
VS + L WT S V E L N LM+ I Q+ + T+ +
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRI------NYKFLMSP-IKTEQRQPSMMTRMYI 113
Query: 107 TLESSEFGLSNKFETDFPSSLISRVAP-EEYQTTIEQIN---------------TVL--- 147
+ + F +SR+ P + + + ++ T +
Sbjct: 114 EQRDRLYNDNQVFAKYN----VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 148 -------KKTLPVNAKWLFCGCVCC-----------CCTLGCSLW---------PVVCLS 180
+ + WL + + + S
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 181 ----KRRFFGVSRPLPKCL----NVSPSVFVKEVETHCPH-VTSREGSAA 221
RR S+P CL NV + C +T+R
Sbjct: 230 IQAELRRLL-KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
>1wos_A Aminomethyltransferase; T-protein; 1.84A {Thermotoga maritima}
SCOP: b.44.2.1 d.250.1.1 PDB: 1woo_A* 1wop_A* 1wor_A
Length = 364
Score = 29.8 bits (68), Expect = 0.68
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFLR-----DFRKLTTGK 27
MG+ +VKGP E F+ DF L GK
Sbjct: 51 MGEFLVKGP--EAVSFIDFLITNDFSSLPDGK 80
>1yx2_A Aminomethyltransferase; glycine cleavage system T protein,
alpha-beta, beta-barrel, structural genomics, PSI,
protein structure initiative; 2.08A {Bacillus subtilis}
Length = 365
Score = 29.8 bits (68), Expect = 0.75
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFLR-----DFRKLTTGK 27
MG++ V G ++ FL+ D LT G+
Sbjct: 55 MGEVEVSGN--DSLSFLQRLMTNDVSALTPGR 84
>2vhk_A Thaumatin-I; kinetics of crystallization, chirality, temperature,
microbatch, plant protein, sweet protein; HET: TLA;
0.94A {Thaumatococcus daniellii} PDB: 2blu_A* 2blr_A*
2wbz_A 3n02_A* 3n03_A* 2vhr_A* 1lr2_A* 1lr3_A* 1lxz_A*
1ly0_A* 1pp3_A 1thi_A 2oqn_A* 1kwn_A* 2vi1_A 2vi2_A*
2vi3_A* 2vi4_A* 2vu6_A 2vu7_A* ...
Length = 206
Score = 28.7 bits (63), Expect = 1.2
Identities = 11/83 (13%), Positives = 17/83 (20%), Gaps = 3/83 (3%)
Query: 136 YQTTIEQINTVLKKTLPVNAKWLFCGCVCC---CCTLGCSLWPVVCLSKRRFFGVSRPLP 192
+ + V P C C C F S
Sbjct: 100 IDISNIKGFNVPMNFSPTTRGCRGVRCAADIVGQCPAKLKAPGGGCNDACTVFQTSEYCC 159
Query: 193 KCLNVSPSVFVKEVETHCPHVTS 215
P+ + + + CP S
Sbjct: 160 TTGKCGPTEYSRFFKRLCPDAFS 182
>1v5v_A Aminomethyltransferase; glycine-cleavage sytem, structural riken
structural genomics/proteomics initiative, RSGI; 1.50A
{Pyrococcus horikoshii} SCOP: b.44.2.1 d.250.1.1
Length = 401
Score = 28.8 bits (65), Expect = 1.6
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFLR-----DFRKLTTGK 27
MG+IV +G + KFL+ D K
Sbjct: 55 MGEIVFRGK--DALKFLQYVTTNDISKPPAIS 84
>3tfi_A GCVT-like aminomethyltransferase protein; demethylase, THF; 1.60A
{Candidatus pelagibacter ubique} PDB: 3tfh_A 3tfj_A*
Length = 369
Score = 28.6 bits (65), Expect = 1.7
Identities = 5/32 (15%), Positives = 13/32 (40%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFL-----RDFRKLTTGK 27
++ + G ++ + + RD K G+
Sbjct: 63 ERQVEISGK--DSAELVQLMTCRDLSKSKIGR 92
>3ttg_A Putative aminomethyltransferase; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
2.00A {Leptospirillum rubarum}
Length = 355
Score = 27.9 bits (63), Expect = 2.6
Identities = 7/32 (21%), Positives = 11/32 (34%), Gaps = 7/32 (21%)
Query: 1 MGKIVVKGPMNETEKFLR-----DFRKLTTGK 27
I V+G + + FL+ D K
Sbjct: 45 RPSIFVEGE--DRKNFLQGIASQDILKQDEKS 74
>2kq1_A BH0266 protein; solution NESG, structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium; NMR {Bacillus halodurans}
Length = 119
Score = 26.3 bits (58), Expect = 5.0
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 3/36 (8%)
Query: 121 TDFPSSLISRVAPEEYQTTIEQINTVLKKTLPVNAK 156
FP L V P + +E+ T ++PV +
Sbjct: 76 RGFPGDLAVTVEPRMARVQLEERQT---VSVPVTVE 108
>2puj_A 2-hydroxy-6-OXO-6-phenylhexa-2,4-dienoate hydrola; C-C bond
hydrolase, hydrolase; HET: HPZ; 1.57A {Burkholderia
xenovorans} PDB: 2pu7_A* 3v1m_A* 3v1l_A* 2puh_A*
3v1n_A* 3v1k_A* 2og1_A 2pu5_A 2rhw_A* 2rht_A* 2ri6_A
Length = 286
Score = 26.9 bits (60), Expect = 5.4
Identities = 5/29 (17%), Positives = 8/29 (27%), Gaps = 2/29 (6%)
Query: 36 ALDQFGFGTSGKVGPLGRKTPVSMQIDLV 64
D GF S + + + V
Sbjct: 68 LKDSPGFNKSDA--VVMDEQRGLVNARAV 94
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 0.136 0.427
Gapped
Lambda K H
0.267 0.0678 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,402,267
Number of extensions: 186977
Number of successful extensions: 407
Number of sequences better than 10.0: 1
Number of HSP's gapped: 406
Number of HSP's successfully gapped: 16
Length of query: 234
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,160,982
Effective search space: 595020426
Effective search space used: 595020426
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: 56 (25.5 bits)