RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14393
(114 letters)
>1q7l_A Aminoacylase-1; catalysis, enzyme dimerization, site- directed
mutagenesis, structure comparison, zinc, hydrolase;
1.40A {Homo sapiens} SCOP: c.56.5.4
Length = 198
Score = 63.6 bits (155), Expect = 5e-14
Identities = 27/53 (50%), Positives = 36/53 (67%)
Query: 3 DEEIGGSQGMSLFVTTDAFKKMNVGCALDEGIASPTEVFALFNGERTIWQMKI 55
DEE+GG QGM LFV F + G ALDEGIA+PT+ F +F ER+ W +++
Sbjct: 146 DEEVGGHQGMELFVQRPEFHALRAGFALDEGIANPTDAFTVFYSERSPWWVRV 198
>1lfw_A PEPV; hydrolase, dipeptidase; HET: AEP; 1.80A {Bacteria} SCOP:
c.56.5.4 d.58.19.1
Length = 470
Score = 40.3 bits (94), Expect = 3e-05
Identities = 13/90 (14%), Positives = 27/90 (30%), Gaps = 11/90 (12%)
Query: 3 DEEIGGSQGMSLFVTTDAFKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPG 62
+EE G+ ++ + + + E + + NGE+ I+ ++
Sbjct: 152 NEETNW-VGIDYYLKHEPTPDI--------VFSPDAE-YPIINGEQGIFTLEFSFKNDDT 201
Query: 63 HGSL-LHENTAAEKVNYIMNKFLALREEEK 91
G L + A N A
Sbjct: 202 KGDYVLDKFKAGIATNVTPQVTRATISGPD 231
>2rb7_A Peptidase, M20/M25/M40 family; YP_387682.1, CO-catalytic
metallopeptidase, peptidase family M20/M25/M40,
structural genomics; HET: MSE PGE PG4; 1.60A
{Desulfovibrio desulfuricans subsp}
Length = 364
Score = 37.6 bits (88), Expect = 3e-04
Identities = 21/114 (18%), Positives = 36/114 (31%), Gaps = 20/114 (17%)
Query: 3 DEEIGGSQGMSLFVTTDAFKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPG 62
DEEIGG G + + + + + E+ I +K+ C G
Sbjct: 138 DEEIGGMNGAAKAL-----PLIRADYVV---ALDGGNPQQVITKEKGIIDIKLTCTGKAA 189
Query: 63 HGSLLHE--NTAAEKVNYIMNKFLALREEEKNKLKANKNLTIGDVTTINITMLS 114
HG+ N A + + + L EE T+N+ +
Sbjct: 190 HGARPWMGVN-AVDLLMEDYTRLKTLFAEENEDHWH---------RTVNLGRIR 233
>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 = 36.6 bits (84), Expect = 8e-04
Identities = 22/120 (18%), Positives = 44/120 (36%), Gaps = 31/120 (25%)
Query: 8 GSQ----GMSLFVTTDAFKKM----------NVGCALDEGIA-SPTEVFALFNGERTIWQ 52
GSQ GM L+ T+ A + + G ++ + + +P + F GE+
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK---- 1680
Query: 53 MKIHCPGTPGHGSLLHENTAAEKVNYIMNKFLALREEEKNKLKANKNLTI-GDVTTINIT 111
G + EN +A I++ L + K + + + T + ++ T
Sbjct: 1681 -----------GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT 1729
Score = 26.9 bits (59), Expect = 1.5
Identities = 21/88 (23%), Positives = 31/88 (35%), Gaps = 31/88 (35%)
Query: 29 ALDEGIASPTEVFALFNG---------E-RTIWQMKIHCPGTPGHGSLLHENTAAEKVNY 78
A+ EG A + A+F G E R ++Q G L+ +AE
Sbjct: 148 AVGEGNAQ---LVAIFGGQGNTDDYFEELRDLYQT-----YHVLVGDLIK--FSAET--- 194
Query: 79 IMNKFLALREEEKNKLKANKNLTIG-DV 105
L E + L A K T G ++
Sbjct: 195 -------LSELIRTTLDAEKVFTQGLNI 215
Score = 26.9 bits (59), Expect = 1.7
Identities = 14/76 (18%), Positives = 22/76 (28%), Gaps = 17/76 (22%)
Query: 1 MLDEEIGGSQGMSLFVTTDAFKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGT 60
ML ++ D K N + + +L NG + + + G
Sbjct: 338 ML-----SISNLTQEQVQDYVNKTNSHLPAGKQVE-----ISLVNGAKNL----V-VSGP 382
Query: 61 PGHGSLLHENTAAEKV 76
P SL N K
Sbjct: 383 P--QSLYGLNLTLRKA 396
Score = 26.2 bits (57), Expect = 3.7
Identities = 26/121 (21%), Positives = 42/121 (34%), Gaps = 38/121 (31%)
Query: 8 GSQGMSLFVTT----------DAFKKM----NVGCALDEGIASPTEVFALFNGERTIWQM 53
GS L V T + F K+ G A D+ +P E+ F +
Sbjct: 14 GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF--------L 65
Query: 54 KIHCPGTPGHGSLLHENTAAEKVNYIMNKFLALREEEKNKLKANKNLTIGDVTTINITML 113
G+ S L E + + + ++N L L E E L+ N D+ + +L
Sbjct: 66 --------GYVSSLVEPSKVGQFDQVLN--LCLTEFENCYLEGN------DIHALAAKLL 109
Query: 114 S 114
Sbjct: 110 Q 110
>3ue3_A Septum formation, penicillin binding protein 3, peptidoglycan
synthetase; transpeptidase, transferase; 2.30A
{Acinetobacter}
Length = 554
Score = 34.9 bits (81), Expect = 0.003
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 21 FKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPGHGSL 66
K V AL+ G +P + G + I +G+L
Sbjct: 283 MKPFTVAAALESGQYTPNSIVNTAPGTMRLGWHTIRDTH--NYGAL 326
>3pbt_A Penicillin-binding protein 3; PBP3, hydrolase-antibiotic complex;
HET: UE1; 1.64A {Pseudomonas aeruginosa} PDB: 3pbn_A*
3pbo_A* 3pbr_A* 3pbs_A* 3pbq_A* 3oc2_A 3ocl_A* 3ocn_A*
Length = 538
Score = 34.9 bits (81), Expect = 0.003
Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 21 FKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPGHGSL 66
K ++ AL G P+++ ++ G I + I + L
Sbjct: 255 VKPFSMSAALASGRWKPSDIVDVYPGTLQIGRYTIRDV-SRNSRQL 299
>2f7v_A Aectylcitrulline deacetylase; alpha/beta, hydrolase; 1.75A
{Xanthomonas campestris} PDB: 2f8h_A
Length = 369
Score = 33.8 bits (78), Expect = 0.006
Identities = 20/116 (17%), Positives = 28/116 (24%), Gaps = 19/116 (16%)
Query: 3 DEEIGGSQGMSLFVTTDAFKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPG 62
DEE L +A PT R I + + G G
Sbjct: 132 DEEANDP-RCIAAFLARGLP---YDAVL---VAEPTM-SEAVLAHRGISSVLMRFAGRAG 183
Query: 63 HGSLLHENT--AAEKVNYIMNKFLALREEEKNKLKANKNLTIGDV--TTINITMLS 114
H S + A + K L E + G + NI +
Sbjct: 184 HASGKQDPAASALHQAMRWGGKALDHVESLAHA-------RFGGLTGLRFNIGRVD 232
>1qme_A Penicillin-binding protein 2X; peptidoglycan synthesis, resistance,
cell WALL, transmembrane; 2.4A {Streptococcus
pneumoniae} SCOP: d.11.1.1 d.11.1.1 d.175.1.1 e.3.1.1
PDB: 1qmf_A* 1pyy_A* 1rp5_A 1pmd_A 1k25_A 2zc3_B*
2z2l_B* 2z2m_B* 2zc4_B* 2zc3_A* 2z2l_A* 2z2m_A* 2zc4_A*
2zc3_C* 2z2l_C* 2z2m_C* 2zc4_C*
Length = 702
Score = 30.9 bits (70), Expect = 0.071
Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 6/50 (12%)
Query: 21 FKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHC----PGTPGHGSL 66
K M + A+D EVF + E I I G G +
Sbjct: 291 MKVMMLAAAIDNNTFPGGEVF--NSSELKIADATIRDWDVNEGLTGGRMM 338
>3equ_A PBP-2, penicillin-binding protein 2; class B transpeptidase, cell
DIV cell inner membrane, cell membrane, cell shape; HET:
SEP; 2.40A {Neisseria gonorrhoeae} PDB: 3eqv_A*
Length = 542
Score = 30.3 bits (69), Expect = 0.12
Identities = 9/46 (19%), Positives = 12/46 (26%), Gaps = 4/46 (8%)
Query: 21 FKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPGHGSL 66
K + ALD G E I + + SL
Sbjct: 273 IKPFVIAKALDAGKTDLNERL--NTQPYKIGPSPVRDTH--VYPSL 314
>3lo7_A PBPA, penicillin-binding protein A; transpeptidase domain, cell
membrane, cell shape, cell WALL biogenesis/degradation,
membrane; 2.05A {Mycobacterium tuberculosis}
Length = 483
Score = 25.3 bits (56), Expect = 5.1
Identities = 5/43 (11%), Positives = 10/43 (23%), Gaps = 7/43 (16%)
Query: 29 ALDEGIASPTEVFA-----LFNGERTIWQMKIHCPGTPGHGSL 66
AL G ++ A L + ++
Sbjct: 224 ALAAGATETEQLTAAPTIPLPGSTAQLE--NYGGAPCGDEPTV 264
>2wad_A Penicillin-binding protein 2B; peptidoglycan synthesis, transme
antibiotic resistance, cell shape, peptidoglycan; 2.18A
{Streptococcus pneumoniae} PDB: 2wae_A 2waf_A
Length = 680
Score = 25.2 bits (55), Expect = 7.4
Identities = 6/45 (13%), Positives = 12/45 (26%), Gaps = 1/45 (2%)
Query: 21 FKKMNVGCALDEGIASPTEVFALFNGERTIWQMKIHCPGTPGHGS 65
K + + G+ S + I+ +GS
Sbjct: 388 VKAATISSGWENGVLSGNQTL-TDQPIVFQGSAPIYSWYKLAYGS 431
>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 = 24.5 bits (54), Expect = 7.6
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 39 EVFALFNGERTIWQMKIHCPGTP 61
EV A N T + + GT
Sbjct: 74 EVIASLNQRDTPLTLPLDIRGTA 96
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
0.316 0.133 0.383
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,703,866
Number of extensions: 89158
Number of successful extensions: 150
Number of sequences better than 10.0: 1
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 17
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
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 (21.6 bits)
S2: 51 (23.4 bits)