RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6685
(199 letters)
>2fzf_A Hypothetical protein; structural genomics, southeast collaboratory
for structural genomics, secsg, protein structure
initiative, PSI; 2.70A {Pyrococcus furiosus} SCOP:
a.25.1.1
Length = 175
Score = 44.3 bits (104), Expect = 4e-06
Identities = 22/138 (15%), Positives = 52/138 (37%), Gaps = 8/138 (5%)
Query: 33 LDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRP 92
L+E++ + E+GA Y + ++ KI + ++EK H+A +L +
Sbjct: 21 LEELLGMAIKAEIGAREFYKSLAEKIKIEALKEKINWLAEEEKKHEALLRKLYSQMFPGK 80
Query: 93 TALLPFWNVAGFILGAGSALLGPKGAMAC---TVAVESVIVDHYNEQLRALMSDPAANRE 149
+ P ++ + L + + + E + + Y + + + E
Sbjct: 81 EVVFPKEHIGPELQPVARELEKVQDIIDLIRWAMKAEEIAAEFYLK-----LEEMVKEEE 135
Query: 150 LMDVIHKFRDEEQEHHDT 167
++ D E+ H+ T
Sbjct: 136 KKRLMRYLADMERGHYYT 153
Score = 25.8 bits (56), Expect = 8.2
Identities = 8/53 (15%), Positives = 17/53 (32%)
Query: 33 LDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELI 85
+ ++IR E A Y ++ ++ + D E+ H
Sbjct: 106 IIDLIRWAMKAEEIAAEFYLKLEEMVKEEEKKRLMRYLADMERGHYYTLRAEY 158
>1vjx_A Putative ferritin-like DIIRON-carboxylate protein; structural
genomics, joint center for structural genomics, J
protein structure initiative; 2.30A {Thermotoga
maritima} SCOP: a.25.1.1
Length = 157
Score = 36.2 bits (83), Expect = 0.002
Identities = 25/137 (18%), Positives = 53/137 (38%), Gaps = 11/137 (8%)
Query: 33 LDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRP 92
+ +I+ V E +R Y +++ N + E+ DQE+ H F ++ +
Sbjct: 15 VSDILTVAIRLEEEGERFYR-ELSEHFNGEIKKTFLELADQERIHAEIFRKMSDQENWDE 73
Query: 93 TALLPFWNVAGFILGAGSAL-----LGPKGAMACTVAVESVIVDHYNEQLRALMSDPAAN 147
+ S + L K + ++VE + Y +L+ + + A
Sbjct: 74 VDSYLAGYAFYEVFPDTSEILRRKDLTLKEVLDIAISVEKDSIILY-YELKDGLVNSDAQ 132
Query: 148 RELMDVIHKFRDEEQEH 164
+ + +I D+E+EH
Sbjct: 133 KTVKKII----DQEKEH 145
Score = 26.2 bits (57), Expect = 6.6
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 33 LDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRK 87
L E++ + + E + +Y L NS ++++ DQEK H K E+ R+
Sbjct: 101 LKEVLDIAISVEKDSIILYYELKDGLVNSDAQKTVKKIIDQEKEHLRKLLEMKRE 155
>2e0z_A Virus-like particle; bacteriophage, HK97; 3.60A {Pyrococcus
furiosus}
Length = 345
Score = 35.0 bits (80), Expect = 0.011
Identities = 15/58 (25%), Positives = 27/58 (46%)
Query: 31 RQLDEIIRVDHAGELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKY 88
+L EI+R+ EL A +Y + +V + ++ +EKAH +F L+
Sbjct: 18 EELMEILRLAIIAELDAINLYEQMARYSEDENVRKILLDVAREEKAHVGEFMALLLNL 75
>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 = 32.6 bits (73), Expect = 0.039
Identities = 11/53 (20%), Positives = 16/53 (30%), Gaps = 23/53 (43%)
Query: 74 EKAHKAKFEELIRKYRVRPTALLPFWNVAGFILGAGSALLGPKGAMACTVAVE 126
EK K + ++ Y A SA P A+A +E
Sbjct: 18 EKQALKKLQASLKLY-----A--D-----------DSA---P--ALAIKATME 47
>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 = 32.7 bits (74), Expect = 0.074
Identities = 13/68 (19%), Positives = 21/68 (30%), Gaps = 23/68 (33%)
Query: 42 AGELGADRIYA---GQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRPTALLPF 98
A G ++ A GQ GN+ + + FEEL Y+ +
Sbjct: 148 AVGEGNAQLVAIFGGQ----GNT-------DDY---------FEELRDLYQTYHVLVGDL 187
Query: 99 WNVAGFIL 106
+ L
Sbjct: 188 IKFSAETL 195
Score = 29.2 bits (65), Expect = 0.90
Identities = 21/124 (16%), Positives = 34/124 (27%), Gaps = 38/124 (30%)
Query: 55 MAVLGNSSVAPKIQEMWDQEKAH-KAKFEELIRK-YRVRPTALLPFWNVAGFILGAGSAL 112
M + S A Q++W++ H K + I P L +
Sbjct: 1633 MDLYKTSKAA---QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFG------------ 1677
Query: 113 LGPKGAMACTVAVESVIVDHYNEQLRALMSD---------PAANRELMDVIHKFRDEEQE 163
G KG I ++Y+ + + D N FR E+
Sbjct: 1678 -GEKGKR---------IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT--FRSEKGL 1725
Query: 164 HHDT 167
T
Sbjct: 1726 LSAT 1729
>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 = 29.1 bits (64), Expect = 1.2
Identities = 15/62 (24%), Positives = 19/62 (30%), Gaps = 7/62 (11%)
Query: 124 AVESVIVDHYNEQLRALMSDPAANRELMDV-IHKFRDEEQEHHDTGLEHGAEQAPFYKLM 182
A+ IVDHYN D D + HH +EH F +
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYL--DQYFYSHIG----HHLKNIEHPERMTLFRMVF 497
Query: 183 TD 184
D
Sbjct: 498 LD 499
Score = 26.7 bits (58), Expect = 6.1
Identities = 21/151 (13%), Positives = 42/151 (27%), Gaps = 55/151 (36%)
Query: 56 AVLGN----SSVAPKIQEM---WDQ-EKAHKAKFEELIRK---------YRVR------- 91
+ N S +A I++ WD + + K +I YR
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381
Query: 92 ------PTALLP-FWNVAGFILGAGSALLGPKGAMACTVAVESVIVDHYNEQLRALMSDP 144
PT LL W + V+V+ + + P
Sbjct: 382 PPSAHIPTILLSLIWF-------------------DVIKSDVMVVVNKL-HKYSLVEKQP 421
Query: 145 AANR-ELMDVIHKFR---DEEQEHHDTGLEH 171
+ + + + + + E H + ++H
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDH 452
>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 = 28.0 bits (63), Expect = 2.1
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 98 FWNVA--GFILGAGSALLGPKGAMACTVAVE 126
W ++ G+IL +L+ P ACT
Sbjct: 250 MWTISDTGWILNILCSLMEPWALGACTFVHL 280
>1w66_A Lipoyltransferase; lipoate-protein ligase B, lipoic acid,
acyltransferase, mycobacterium tuberculosis structural
proteomics project; HET: DKA; 1.08A {Mycobacterium
tuberculosis} SCOP: d.104.1.3
Length = 232
Score = 27.3 bits (61), Expect = 3.1
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 11 RVNYQQGFRLVRNLHQKRVTRQLDEIIRVDH 41
V+Y+ ++L R L RV D ++ ++H
Sbjct: 21 TVDYRTAWQLQRELADARVAGGADTLLLLEH 51
>2y3s_A TAML; oxidoreductase; HET: FAD TIR; 1.67A {Streptomyces SP} PDB:
2y3r_A* 2y08_A* 2y4g_A*
Length = 530
Score = 27.6 bits (61), Expect = 3.5
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 4/54 (7%)
Query: 101 VAGFILGAGSALLGPKGAMAC--TVAVESVIVDHYNEQL-RALMSDPAA-NREL 150
G ILG G L AVE V+VD + +P+ N +L
Sbjct: 157 AGGHILGGGYGPLSRMHGSIVDYLHAVEVVVVDASGDARTVIATREPSDPNHDL 210
>1jkm_A Brefeldin A esterase; serine hydrolase, degradation of brefeldin A,
alpha/beta hydrolase family; 1.85A {Bacillus subtilis}
SCOP: c.69.1.2
Length = 361
Score = 26.7 bits (59), Expect = 5.9
Identities = 6/24 (25%), Positives = 8/24 (33%), Gaps = 5/24 (20%)
Query: 39 VDHAGELGADRIYAGQMAVLGNSS 62
+H LG + V G S
Sbjct: 176 DEHRESLGLSGV-----VVQGESG 194
>3bmx_A Uncharacterized lipoprotein YBBD; beta-N-hexosaminidase, TIM
barrel, glycos hydrolase, membrane, palmitate; HET:
P4G; 1.40A {Bacillus subtilis} PDB: 3cqm_A* 3nvd_A*
3lk6_A*
Length = 642
Score = 26.8 bits (59), Expect = 6.5
Identities = 6/38 (15%), Positives = 14/38 (36%)
Query: 53 GQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRV 90
GQM + + + + + L++KY+
Sbjct: 49 GQMLMPDFRNWQKEGESSPQALTKMNDEVASLVKKYQF 86
>2oh3_A Rubrerythrin, COG1633: uncharacterized conserved protein;
ZP_00055496.1, COG1633: uncharacterized conSer protein;
HET: MSE PGE; 2.00A {Magnetospirillum magnetotacticum}
SCOP: a.25.1.8
Length = 167
Score = 26.2 bits (57), Expect = 6.7
Identities = 8/50 (16%), Positives = 14/50 (28%)
Query: 44 ELGADRIYAGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVRPT 93
E+ Y A + V + +E H ++ I K
Sbjct: 105 EIRGMEYYKEAAANSADPEVKRLGADFAAEEAEHVVALDKWIEKTPRPSI 154
>1j30_A 144AA long hypothetical rubrerythrin; sulerythrin, sulfolobus
tokodaii strain 7, FOU bundle, domain swapping, metal
binding site plasticity; 1.70A {Sulfolobus tokodaii}
SCOP: a.25.1.1
Length = 144
Score = 26.0 bits (57), Expect = 7.0
Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 35 EIIRVDHAGELGADRIY---AGQMAVLGNSSVAPKIQEMWDQEKAHKAKFEELIRKYRVR 91
E ++ GE A+R Y A + G +A ++ + + E AH + IR+ +
Sbjct: 11 ENLKQGFIGESMANRRYLYFAKRADEEGYPEIAGLLRSIAEGETAHAFGHLDFIRQGGLT 70
Query: 92 PTA 94
A
Sbjct: 71 DPA 73
>1g6h_A High-affinity branched-chain amino acid transport ATP-binding
protein; beta-core domain; HET: ADP; 1.60A
{Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB:
1gaj_A 1g9x_A*
Length = 257
Score = 26.3 bits (59), Expect = 7.1
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 19/47 (40%)
Query: 138 RALMSD--------PAA--NR----ELMDVIHKFRDEEQ-----EHH 165
RALM++ P A ++ + + + + + EH
Sbjct: 166 RALMTNPKMIVMDEPIAGVAPGLAHDIFNHVLELKAKGITFLIIEHR 212
>1zpy_A Hypothetical protein NE0167; structural genomics, MCSG, PSI,
protein structure initiative; 2.20A {Nitrosomonas
europaea atcc 19718} SCOP: a.25.1.5 PDB: 3k6c_A
Length = 95
Score = 25.3 bits (55), Expect = 7.3
Identities = 14/39 (35%), Positives = 15/39 (38%), Gaps = 5/39 (12%)
Query: 126 ESVIVDHYNEQLRALMSDPAANRELMDVIHKFRDEEQEH 164
E VD YN Q D L RDEE+EH
Sbjct: 30 ELEAVDLYN-QRVNACKDKELKAILAHN----RDEEKEH 63
>3djc_A Type III pantothenate kinase; structural genomics, putative
transfera 2, protein structure initiative; 2.40A
{Legionella pneumophila subsp}
Length = 266
Score = 26.1 bits (58), Expect = 8.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 37 IRVDHAGELGADRI 50
I+ + E+GADRI
Sbjct: 99 IKYRNPVEVGADRI 112
>2h3g_X Biosynthetic protein; pantothenate kinase, anthrax, type III
pantothenate kinase, COAX, COAA, askha; 2.00A {Bacillus
anthracis str}
Length = 268
Score = 25.7 bits (57), Expect = 9.1
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 37 IRVDHAGELGADRI 50
I+ ++ E+GADRI
Sbjct: 98 IKYENPREVGADRI 111
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 26.1 bits (57), Expect = 9.4
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 55 MAVLGNSSVAPKIQEMWDQEKAHKAKFEE 83
MA L ++ K Q+ W + K + +
Sbjct: 1 MAELNFKAIEEKWQKRWLEAKIFEPNIRD 29
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 0.135 0.397
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,148,735
Number of extensions: 190292
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 545
Number of HSP's successfully gapped: 42
Length of query: 199
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 110
Effective length of database: 4,216,824
Effective search space: 463850640
Effective search space used: 463850640
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: 55 (24.9 bits)