RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10042
(102 letters)
>1pg4_A Acetyl-COA synthetase; AMP-forming, adenylate-forming,
thioester-forming, ligase; HET: COA PRX; 1.75A
{Salmonella enterica} SCOP: e.23.1.1 PDB: 1pg3_A*
2p2f_A* 2p2b_A* 2p2q_A* 2p2j_A* 2p20_A* 2p2m_A*
Length = 652
Score = 106 bits (267), Expect = 1e-28
Identities = 32/100 (32%), Positives = 51/100 (51%), Gaps = 6/100 (6%)
Query: 3 KSLYEPNADLSKKSYISTMAKYQEVYKKSIECPEEFWGQIAKQFHWETPIDLDRFHSHNF 62
+ A+++ + I+ +Y+ YK+SI P+ FWG+ K W TP N
Sbjct: 4 THKHAIPANIADRCLIN-PEQYETKYKQSINDPDTFWGEQGKILDWITPYQ----KVKNT 58
Query: 63 NISNGPISIKWLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
+ + G +SIKW E T N+ N LDR+++ GD+ A W
Sbjct: 59 SFAPGNVSIKWYEDGTLNLAANCLDRHLQEN-GDRTAIIW 97
>1ry2_A Acetyl-coenzyme A synthetase 1, acyl-activating enzyme 1; AMP
forming, related to firefly luciferase, ligase; HET:
AMP; 2.30A {Saccharomyces cerevisiae} SCOP: e.23.1.1
Length = 663
Score = 96.9 bits (242), Expect = 3e-25
Identities = 25/104 (24%), Positives = 43/104 (41%), Gaps = 5/104 (4%)
Query: 1 MKKSLYEPNADLSKKSYISTMAKYQEVYKKSIECPEEFWGQIAKQF-HWETPIDLDRFHS 59
+ ++ L + + YQ ++K+SIE P +F+G A QF +W P D+
Sbjct: 3 SSHHHHHHSSGLVPRGSHMGLQDYQRLHKESIEDPAKFFGSKATQFLNWSKP--FDKVFI 60
Query: 60 HNFNISNGPI-SIKWLEGATTNICYNLLDRNIRLGLGDKVAFYW 102
+ + W N CYN +DR+ +K A +
Sbjct: 61 PDPKTGRPSFQNNAWFLNGQLNACYNCVDRHAL-KTPNKKAIIF 103
>3etc_A AMP-binding protein; adenylate-forming acyl-COA synthetase ligase,
ligase; HET: PGE 1PE EPE; 2.10A {Methanosarcina
acetivorans}
Length = 580
Score = 50.6 bits (122), Expect = 6e-09
Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 12/82 (14%)
Query: 22 AKYQEVYKKSIECPEEFWGQIAKQFHWETPI-DLDRFHSHNFNISNGPISIKWLEGATTN 80
+ I+ ++ + QF +T + F + K L N
Sbjct: 7 HHHHHHSSGHIDDDDKHMTSLLSQFVSKTDFESYEDFQEN----------FKILVPENFN 56
Query: 81 ICYNLLDRNIRLGLGDKVAFYW 102
Y+++D R +K+A W
Sbjct: 57 FAYDVVDVYAR-DSPEKLAMIW 77
>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 = 38.1 bits (88), Expect = 2e-04
Identities = 9/57 (15%), Positives = 22/57 (38%), Gaps = 8/57 (14%)
Query: 25 QEVYKKSIECPEEFWGQIAKQFH--WETPIDLDRFHSHNFNISNGPISIKWLEGATT 79
+++Y+ + A+ T +D ++ + NI ++WLE +
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI------LEWLENPSN 224
Score = 24.6 bits (53), Expect = 7.9
Identities = 8/40 (20%), Positives = 16/40 (40%), Gaps = 13/40 (32%)
Query: 61 NFNISNGPISI----KWLEGATTNICYNLLD----RNIRL 92
N+N+ N + L+ T N+L+ + I +
Sbjct: 1845 NYNVENQQYVAAGDLRALDTVT-----NVLNFIKLQKIDI 1879
>2wkn_A Formamidase, gamma-lactamase; hydrolase, biocatalysis; 2.08A
{Delftia acidovorans}
Length = 409
Score = 29.1 bits (64), Expect = 0.23
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 6/48 (12%)
Query: 31 SIECPEEFWGQIAKQFHWETPIDLDRFHSHNFNISNGPISIKWLEGAT 78
+E + G I ++ D+ + +GP+ ++GA
Sbjct: 41 KLETYDWTGGAIKND---DSAEDVRDVDLSTVHFLSGPV---GVKGAE 82
>3c5e_A Acyl-coenzyme A synthetase ACSM2A, mitochondrial; middle-chain
acyl-COA synthetase, xenobiotic/medium-chain FA COA
ligase; HET: ATP; 1.60A {Homo sapiens} PDB: 2vze_A
3b7w_A* 3day_A* 3eq6_A* 3eyn_A* 3gpc_A* 2wd9_A*
Length = 570
Score = 28.4 bits (64), Expect = 0.43
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 7/40 (17%)
Query: 70 SIKWLE---GATTNICYNLLDRNIRLGL----GDKVAFYW 102
S++W A N ++LD + A +W
Sbjct: 25 SLQWGHQEVPAKFNFASDVLDHWADMEKAGKRPPSPALWW 64
>1dun_A Deoxyuridine 5'-triphosphate nucleoditohydrolase; dutpase, EIAV,
trimeric enzyme, aspartyl protease; 1.90A {Equine
infectious anemia virus} SCOP: b.85.4.1 PDB: 1duc_A
Length = 134
Score = 27.1 bits (61), Expect = 0.75
Identities = 19/78 (24%), Positives = 25/78 (32%), Gaps = 28/78 (35%)
Query: 31 SIECPEEFWGQI------AKQFHWETP--IDLD-RFHSHNFNISNGPISIKWLEGATTNI 81
I+ P +G + AKQ ID G I + I
Sbjct: 42 KIQVPPNSFGWVTGKSSMAKQGLLINGGIIDEGYT----------GEIQV---------I 82
Query: 82 CYNLLDRNIRLGLGDKVA 99
C N+ NI+L G K A
Sbjct: 83 CTNIGKSNIKLIEGQKFA 100
>5mdh_A Malate dehydrogenase; oxidoreductase, (NAD(A)-CHOH(D)); HET: NAD;
2.40A {Sus scrofa} SCOP: c.2.1.5 d.162.1.1 PDB: 4mdh_A*
Length = 333
Score = 26.6 bits (59), Expect = 1.5
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 68 PISIKWLEGATTNICYNLLDR 88
PI + + GA I Y+LL
Sbjct: 3 PIRV-LVTGAAGQIAYSLLYS 22
>2kr6_A Presenilin-1; protease, alternative splicing, alzheimer disease,
amyloidos apoptosis, cell adhesion, disease mutation;
NMR {Homo sapiens}
Length = 176
Score = 25.7 bits (55), Expect = 3.1
Identities = 8/15 (53%), Positives = 12/15 (80%), Gaps = 1/15 (6%)
Query: 87 DRNIRLGLGDKVAFY 101
+R ++LGLGD + FY
Sbjct: 85 ERGVKLGLGDFI-FY 98
>7mdh_A Protein (malate dehydrogenase); chloroplastic malate
dehydrogenase (NADP+), activated by LIG chloroplastic
malate dehydrogenase; 2.40A {Sorghum bicolor} SCOP:
c.2.1.5 d.162.1.1 PDB: 1civ_A*
Length = 375
Score = 25.5 bits (56), Expect = 3.4
Identities = 6/21 (28%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 68 PISIKWLEGATTNICYNLLDR 88
++I + GA I +LL +
Sbjct: 32 LVNI-AVSGAAGMISNHLLFK 51
>1b8p_A Protein (malate dehydrogenase); oxidoreductase; 1.90A
{Aquaspirillum arcticum} SCOP: c.2.1.5 d.162.1.1 PDB:
1b8u_A* 1b8v_A* 3d5t_A
Length = 329
Score = 25.4 bits (56), Expect = 3.5
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 65 SNGPISIKWLEGATTNICYNLLDR 88
+ P+ + + GA ICY+LL R
Sbjct: 2 AKTPMRV-AVTGAAGQICYSLLFR 24
>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 = 24.9 bits (53), Expect = 5.1
Identities = 6/25 (24%), Positives = 12/25 (48%), Gaps = 7/25 (28%)
Query: 1 MKK-----SLYEPNA--DLSKKSYI 18
+KK LY ++ L+ K+ +
Sbjct: 22 LKKLQASLKLYADDSAPALAIKATM 46
>1y7t_A Malate dehydrogenase; NAD-dependent-MDH-NADPH complex,
oxidoreductase; HET: NDP; 1.65A {Thermus thermophilus}
SCOP: c.2.1.5 d.162.1.1 PDB: 1iz9_A* 2cvq_A* 1bmd_A*
1bdm_A* 1wze_A* 1wzi_A*
Length = 327
Score = 25.0 bits (55), Expect = 5.8
Identities = 8/21 (38%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 68 PISIKWLEGATTNICYNLLDR 88
P+ + + GA I Y+LL R
Sbjct: 4 PVRV-AVTGAAGQIGYSLLFR 23
>3ckc_A SUSD; TPR repeat, carbohydrate binding, starch binding, sugar
BIND protein; HET: MES; 1.50A {Bacteroides
thetaiotaomicron} SCOP: a.118.8.6 PDB: 3ck8_A* 3ck9_A*
3ckb_A* 3ck7_A*
Length = 527
Score = 24.4 bits (53), Expect = 8.8
Identities = 4/26 (15%), Positives = 12/26 (46%)
Query: 48 WETPIDLDRFHSHNFNISNGPISIKW 73
W+ D+ + S +++ S+ +
Sbjct: 74 WQKNQDIPQLTSISWSPSSQRTEWVY 99
>3nzm_A SSP DNAE intein, DNA polymerase III subunit alpha; disulfide bond,
transferase; HET: DNA; 1.55A {Synechocystis SP} PDB:
1zd7_A* 1zde_A*
Length = 168
Score = 24.4 bits (52), Expect = 8.9
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 48 WETPIDLDRFHSHNFNISNGPIS 70
+ D+ HNF ++NG I+
Sbjct: 144 VQRIFDIGLPQDHNFLLANGAIA 166
>2aby_A Hypothetical protein TA0743; helix-turn-helix, unknown function;
NMR {Thermoplasma acidophilum}
Length = 146
Score = 24.0 bits (51), Expect = 9.0
Identities = 12/53 (22%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 1 MKKSLYEPNADLSKKSYISTMAKYQEVYKKSIECPEEFWGQIAKQFH-WETPI 52
+K + E + S+ Y M KY ++ K+ + + ++ +++ WE PI
Sbjct: 89 ERKKVREKFDENSRMQYSELMTKYHDLKKQG-KIKDRPVKEVHEEYDLWEDPI 140
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
0.319 0.136 0.437
Gapped
Lambda K H
0.267 0.0642 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,587,401
Number of extensions: 80030
Number of successful extensions: 166
Number of sequences better than 10.0: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 24
Length of query: 102
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 35
Effective length of database: 4,831,086
Effective search space: 169088010
Effective search space used: 169088010
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: 51 (23.6 bits)