RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy45
(69 letters)
>3hcn_A Ferrochelatase, mitochondrial; metal selectivity, disease mutation,
heme biosynthesis, iron, iron-sulfur, lyase, membrane,
metal-BIN mitochondrion; HET: CHD HEM GOL; 1.60A {Homo
sapiens} PDB: 2qd3_A* 2qd5_A* 2qd4_A* 3hco_A* 3hcr_A*
2qd1_A* 2hre_A* 3hcp_A* 2qd2_A* 2hrc_A* 1hrk_A* 3aqi_A*
2pnj_A* 2po5_A* 2po7_A*
Length = 359
Score = 79.6 bits (197), Expect = 7e-20
Identities = 26/62 (41%), Positives = 39/62 (62%)
Query: 4 EQLKVDNIRRAAAPNDHPLFIDALVDIVSSHLRSKTKINPKFLNRCPHCVNPKCSQAKQW 63
++ V+NIRRA + N +PLF AL D+V SH++S + + CP CVNP C + K +
Sbjct: 294 KECGVENIRRAESLNGNPLFSKALADLVHSHIQSNELCSKQLTLSCPLCVNPVCRETKSF 353
Query: 64 FS 65
F+
Sbjct: 354 FT 355
Score = 27.2 bits (61), Expect = 0.37
Identities = 5/17 (29%), Positives = 6/17 (35%)
Query: 19 DHPLFIDALVDIVSSHL 35
H L I D + L
Sbjct: 165 THHLLIQCFADHILKEL 181
>1lbq_A Ferrochelatase; rossmann fold, PI-helix, lyase; 2.40A
{Saccharomyces cerevisiae} SCOP: c.92.1.1 PDB: 1l8x_A
Length = 362
Score = 68.8 bits (169), Expect = 6e-16
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 1/65 (1%)
Query: 3 EEQLKVDNIRRAAAPNDHPLFIDALVDIVSSHLRSKTKINPKFLNRCPHCV-NPKCSQAK 61
E D +R + N + FI+ + D+V SHL+S + + N
Sbjct: 294 GESEYKDKFKRCESLNGNQTFIEGMADLVKSHLQSNQLYSNQLPLDFALGKSNDPVKDLS 353
Query: 62 QWFSQ 66
F
Sbjct: 354 LVFGN 358
Score = 27.9 bits (63), Expect = 0.20
Identities = 3/17 (17%), Positives = 7/17 (41%)
Query: 19 DHPLFIDALVDIVSSHL 35
+ I A + ++ L
Sbjct: 170 TNEGLIKAFSENITKKL 186
>2h1v_A Ferrochelatase; rossman fold, PI-helix, lyase; 1.20A {Bacillus
subtilis} PDB: 2hk6_A 1c1h_A* 1ld3_A 1n0i_A 1ak1_A
3goq_A 1doz_A 2q2n_A* 3m4z_A 2h1w_A 2ac2_A 2q3j_A*
2ac4_A 2q2o_A* 1c9e_A* 2c8j_A
Length = 310
Score = 46.4 bits (111), Expect = 5e-08
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 10 NIRRAAAPNDHPLFIDALVDIVSSHL 35
+ R PN P FIDAL +V L
Sbjct: 283 SYYRPEMPNAKPEFIDALATVVLKKL 308
Score = 28.3 bits (64), Expect = 0.12
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 19 DHPLFIDALVDIVSSHLRS 37
D P F+ VD V S
Sbjct: 149 DEPKFVTYWVDRVKETYAS 167
>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 = 30.4 bits (68), Expect = 0.026
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 14/70 (20%)
Query: 3 EEQLKVDNIRRAAAPNDHPLFIDALVD-----IVSSHLRSKTKINPKFLN-RCPHCVNPK 56
++ + N + P + I +LV+ +VS +S +N + P
Sbjct: 350 QDYVNKTN---SHLPAGKQVEI-SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP----SG 401
Query: 57 CSQAKQWFSQ 66
Q++ FS+
Sbjct: 402 LDQSRIPFSE 411
Score = 26.2 bits (57), Expect = 0.85
Identities = 6/49 (12%), Positives = 13/49 (26%), Gaps = 11/49 (22%)
Query: 18 NDHPLFIDALVDIVSSHLRSKTKINPKFLNRCPHCVNPKCSQA---KQW 63
+ + + L+ + L L R +Q +W
Sbjct: 178 QTYHVLVGDLIKFSAETLSE--------LIRTTLDAEKVFTQGLNILEW 218
>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 = 28.8 bits (63), Expect = 0.092
Identities = 8/30 (26%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 3 EEQL--KVDNIRRAAAPNDHP-LFIDALVD 29
E+Q K+ + A + P L I A ++
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>3or1_A Sulfite reductase alpha; dissimilatory sulfite reductase, sulfate
reduction, oxidored sulfite reduction; HET: SRM; 1.76A
{Desulfovibrio gigas} PDB: 3or2_A* 2v4j_A* 2xsj_A*
Length = 437
Score = 26.3 bits (58), Expect = 0.70
Identities = 8/23 (34%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 36 RSKTKINPKFLNRCPHCVN--PK 56
I+ K RC HC+N P+
Sbjct: 293 SGTLSIDNKNCTRCMHCINTMPR 315
>3gg9_A D-3-phosphoglycerate dehydrogenase oxidoreductase; structural
genomics, PSI-2, P structure initiative; 1.90A
{Ralstonia solanacearum}
Length = 352
Score = 25.7 bits (57), Expect = 1.1
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 5/26 (19%)
Query: 25 DALVDIVSSHLRSKTKINPKFLNRCP 50
+ALV I R +T++ + L+R P
Sbjct: 50 EALVLI-----RERTRVTRQLLDRLP 70
>1zu0_A Chitin oligosaccharide binding protein; alpha helix/beta sheet,
sugar binding protein, signaling protein; HET: CBS;
2.20A {Vibrio cholerae} PDB: 1zty_A*
Length = 529
Score = 25.4 bits (56), Expect = 1.6
Identities = 7/54 (12%), Positives = 15/54 (27%), Gaps = 12/54 (22%)
Query: 9 DNIRRAAAPNDH----------PLFIDAL--VDIVSSHLRSKTKINPKFLNRCP 50
+ +++ + + IV+ H+ K F N P
Sbjct: 106 KWVTSVEKVDEYKVRFRLSEANSNVPYEISLIPIVAEHVWKDVKDPTTFTNENP 159
>3uk7_A Class I glutamine amidotransferase-like domain-CO protein; rossmann
fold, cytosol; 2.05A {Arabidopsis thaliana}
Length = 396
Score = 24.7 bits (54), Expect = 2.3
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 4 EQLKVD-NIRRAAAPNDHPLFIDALVD 29
++ D N+ AA HP F+ L+
Sbjct: 362 DRCFTDGNLVTGAAWPGHPEFVSQLMA 388
>1gte_A Dihydropyrimidine dehydrogenase; electron transfer, flavin,
iron-sulfur clusters, pyrimidine catabolism,
5-fluorouracil degradation, oxidoreductase; HET: FMN
FAD; 1.65A {Sus scrofa} SCOP: a.1.2.2 c.1.4.1 c.3.1.1
c.4.1.1 d.58.1.5 PDB: 1gt8_A* 1gth_A* 1h7w_A* 1h7x_A*
Length = 1025
Score = 24.4 bits (53), Expect = 3.3
Identities = 4/14 (28%), Positives = 7/14 (50%)
Query: 47 NRCPHCVNPKCSQA 60
RC C + C ++
Sbjct: 77 MRCLKCADAPCQKS 90
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 24.5 bits (52), Expect = 4.1
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 40 KINPKFLNRCPHCV 53
+ P FL RCPH V
Sbjct: 342 QQLPLFLERCPHPV 355
>3mm5_A Sulfite reductase, dissimilatory-type subunit ALP;
alpha-beta-protein, oxidoreductase; HET: SRM; 1.80A
{Archaeoglobus fulgidus} PDB: 3mm6_A* 3mm7_A* 3mm8_A*
3mm9_A* 3mma_A* 3mmb_A* 3mmc_A* 3c7b_A*
Length = 418
Score = 24.0 bits (52), Expect = 4.2
Identities = 6/18 (33%), Positives = 10/18 (55%)
Query: 37 SKTKINPKFLNRCPHCVN 54
+ I+ + RC HC+N
Sbjct: 277 KELTIDNRECVRCMHCIN 294
>5csm_A Chorismate mutase; chorismate pyruvatemutase, allosteric protein,
complex (ISOM peptide), transition state analog; HET:
TRP; 2.00A {Saccharomyces cerevisiae} SCOP: a.130.1.2
PDB: 3csm_A* 2csm_A* 4csm_A* 1csm_A*
Length = 256
Score = 24.0 bits (52), Expect = 4.4
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 5/44 (11%)
Query: 11 IRRAAAPNDHPLFIDALVDIVSSHLRSKTKINPKFLNRCPHCVN 54
IRR +P++ P F D + + P+ L VN
Sbjct: 74 IRRFESPDETPFFPDKIQKSFLPSINY-----PQILAPYAPEVN 112
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 23.6 bits (51), Expect = 6.2
Identities = 7/36 (19%), Positives = 13/36 (36%)
Query: 2 AEEQLKVDNIRRAAAPNDHPLFIDALVDIVSSHLRS 37
++ +N + + N H L +IV L
Sbjct: 535 EKDCAVCENFQEFLSLNGHLLGRQPFPNIVQLGLCE 570
>2ivf_B Ethylbenzene dehydrogenase beta-subunit; anaerobic hydrocarbon
degradation, MOCO, Fe/S cluster, MO- B enzyme, DMSO
reductase family; HET: MES MGD MD1 HEM; 1.88A
{Aromatoleum aromaticum}
Length = 352
Score = 23.8 bits (51), Expect = 6.4
Identities = 7/16 (43%), Positives = 7/16 (43%)
Query: 45 FLNRCPHCVNPKCSQA 60
C HC NP C A
Sbjct: 147 LARMCNHCTNPACLAA 162
>3dpt_A ROCO, RAB family protein; alpha-beta-protein, signaling protein;
2.90A {Chlorobaculum tepidum}
Length = 332
Score = 23.2 bits (49), Expect = 8.2
Identities = 3/36 (8%), Positives = 11/36 (30%)
Query: 23 FIDALVDIVSSHLRSKTKINPKFLNRCPHCVNPKCS 58
++ + + + T ++ K P +
Sbjct: 254 YLSIIWYEIKKINANFTNLDVKEFIPLPGHPDELVE 289
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
0.323 0.133 0.425
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,058,385
Number of extensions: 46899
Number of successful extensions: 241
Number of sequences better than 10.0: 1
Number of HSP's gapped: 241
Number of HSP's successfully gapped: 22
Length of query: 69
Length of database: 6,701,793
Length adjustment: 39
Effective length of query: 30
Effective length of database: 5,612,874
Effective search space: 168386220
Effective search space used: 168386220
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.6 bits)