RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy104
(86 letters)
>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein;
HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*
Length = 274
Score = 81.7 bits (201), Expect = 9e-21
Identities = 33/72 (45%), Positives = 48/72 (66%)
Query: 8 RQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFNDE 67
R KT +E+ + I+E GV+L LT+VDTPGFGD++++ W+ YID +F Y N E
Sbjct: 44 RIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAE 103
Query: 68 SGLNRKNIVDNR 79
S +NR+ + DNR
Sbjct: 104 SRVNRRQMPDNR 115
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 83.3 bits (205), Expect = 1e-20
Identities = 25/76 (32%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 6 NNRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFN 65
++ + D++E V+L+LT+V T GFGD IN E+S++ +ID QF Y
Sbjct: 72 ATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEFIDAQFEAYLQ 131
Query: 66 DESGLNR--KNIVDNR 79
+E + R D+R
Sbjct: 132 EELKIRRVLHTYHDSR 147
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 82.9 bits (204), Expect = 1e-20
Identities = 33/74 (44%), Positives = 50/74 (67%)
Query: 6 NNRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFN 65
++R KT +E+ + I+E GV+L LT+VDTPGFGD++++ W+ YID +F Y N
Sbjct: 65 SHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLN 124
Query: 66 DESGLNRKNIVDNR 79
ES +NR+ + DNR
Sbjct: 125 AESRVNRRQMPDNR 138
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 81.8 bits (201), Expect = 2e-20
Identities = 42/79 (53%), Positives = 59/79 (74%)
Query: 1 MEKRGNNRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQF 60
+ + +T IE +++IEERGVKLRLTVVDTPG+GD+IN + ++ SYID+QF
Sbjct: 67 VIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQF 126
Query: 61 RQYFNDESGLNRKNIVDNR 79
+Y +DESGLNR++I+DNR
Sbjct: 127 ERYLHDESGLNRRHIIDNR 145
>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC,
mitosis, GDP, C cycle, cell division, GTP-binding,
nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB:
2qa5_A* 3ftq_A*
Length = 301
Score = 80.2 bits (197), Expect = 4e-20
Identities = 42/73 (57%), Positives = 58/73 (79%)
Query: 7 NRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEESWRACCSYIDDQFRQYFND 66
+ +T IE +++IEERGVKLRLTVVDTPG+GD+IN + ++ SYID+QF +Y +D
Sbjct: 54 EKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHD 113
Query: 67 ESGLNRKNIVDNR 79
ESGLNR++I+DNR
Sbjct: 114 ESGLNRRHIIDNR 126
>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 = 33.8 bits (76), Expect = 0.002
Identities = 7/32 (21%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 16 EKKSMD-IEERGVKLRLTVVDT-PGFGDSINS 45
EK+++ ++ L+L D+ P +I +
Sbjct: 18 EKQALKKLQAS---LKLYADDSAPAL--AIKA 44
>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC,
coiled coil, GTP- binding, nucleotide-binding, immune
system; HET: GDP; 2.15A {Homo sapiens}
Length = 239
Score = 32.3 bits (73), Expect = 0.009
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 5 GNNRQGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEE 47
G + T EK+S +E L VVDTPG D+
Sbjct: 58 GTAAKSITKKCEKRSSSWKET----ELVVVDTPGIFDTEVPNA 96
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP;
1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 32.1 bits (73), Expect = 0.011
Identities = 6/39 (15%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 9 QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEE 47
Q + S + + ++DTPG ++
Sbjct: 68 QAEGLRPVMVSRTMGGF----TINIIDTPGLVEAGYVNH 102
>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE;
1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A*
3p1j_A
Length = 260
Score = 28.1 bits (62), Expect = 0.26
Identities = 9/39 (23%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 9 QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEE 47
Q T T K R + ++DTP + E
Sbjct: 55 QTLTKTCSKSQGSWGNR----EIVIIDTPDMFSWKDHCE 89
>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET:
GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*
Length = 270
Score = 28.0 bits (62), Expect = 0.34
Identities = 7/39 (17%), Positives = 12/39 (30%), Gaps = 4/39 (10%)
Query: 9 QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEE 47
Q + S L ++DTPG + +
Sbjct: 71 QSEGPRPVMVSRSRAGF----TLNIIDTPGLIEGGYIND 105
>1m33_A BIOH protein; alpha-betta-alpha sandwich, structural genomics,
PSI, protei structure initiative; HET: MSE 3OH; 1.70A
{Escherichia coli} SCOP: c.69.1.26
Length = 258
Score = 27.2 bits (61), Expect = 0.62
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 30 RLTVVDTPGFGDS 42
L +VD PGFG S
Sbjct: 41 TLHLVDLPGFGRS 53
>2vqr_A Putative sulfatase; phosphonate monoester hydrolase, hydrolase,
plasmid, formylglycine, phosphodiesterase; 1.42A
{Rhizobium leguminosarum BV} PDB: 2w8s_A
Length = 543
Score = 27.0 bits (60), Expect = 0.84
Identities = 8/35 (22%), Positives = 13/35 (37%), Gaps = 9/35 (25%)
Query: 45 SEESWR-------ACCSYIDDQFRQYFN--DESGL 70
E R + +DD + F+ DE+G
Sbjct: 308 DEAELRQMRATYCGLITEVDDCLGRVFSYLDETGQ 342
>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 = 25.9 bits (57), Expect = 1.6
Identities = 5/40 (12%), Positives = 13/40 (32%), Gaps = 4/40 (10%)
Query: 41 DSINSEESWRACCSYIDDQFRQ----YFNDESGLNRKNIV 76
++ + + A ++ ++ RQ E V
Sbjct: 23 RTVQPKPDYGAAVAFFEETARQLGLGCQKVEVAPGYVVTV 62
>3b5q_A Putative sulfatase YIDJ; NP_810509.1, structural genomics, joint
center for structural genomics, JCSG; HET: EPE; 2.40A
{Bacteroides thetaiotaomicron vpi-5482}
Length = 482
Score = 25.7 bits (57), Expect = 2.0
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 7/22 (31%)
Query: 45 SEESWR-------ACCSYIDDQ 59
+EE++R + Q
Sbjct: 239 NEENYRHYIAAFQHYTKMVSKQ 260
>3lxw_A GTPase IMAP family member 1; immunity, structural genomics
consortium, SGC, immune system; HET: GDP; 2.21A {Homo
sapiens} PDB: 3v70_A*
Length = 247
Score = 25.4 bits (55), Expect = 2.6
Identities = 9/39 (23%), Positives = 13/39 (33%), Gaps = 4/39 (10%)
Query: 9 QGKTTTIEKKSMDIEERGVKLRLTVVDTPGFGDSINSEE 47
T S ++ + VVDTP S S+
Sbjct: 54 TSVTRACTTGSRRWDKC----HVEVVDTPDIFSSQVSKT 88
>2bzr_A Propionyl-COA carboxylase beta chain 5; fatty acid biosynthesis,
accase, ligase, transferase; 2.2A {Mycobacterium
tuberculosis} PDB: 2a7s_A
Length = 548
Score = 24.5 bits (54), Expect = 4.8
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 31 LTVVDTPGF 39
+ +VD PGF
Sbjct: 386 VMLVDVPGF 394
>3iav_A Propionyl-COA carboxylase complex B subunit; accase, pccase, ACC,
PCC, CT, carboxyltransfe polyketide, fatty acid, PKS,
FAS; 1.75A {Streptomyces coelicolor} PDB: 1xnw_A 3ib9_A*
3ibb_A 3mfm_C 1xny_A* 1xnv_A* 1xo6_A
Length = 530
Score = 24.5 bits (54), Expect = 5.0
Identities = 7/9 (77%), Positives = 7/9 (77%)
Query: 31 LTVVDTPGF 39
LT VD PGF
Sbjct: 371 LTFVDVPGF 379
>3n6r_B Propionyl-COA carboxylase, beta subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Roseobacter denitrificans}
Length = 531
Score = 24.4 bits (54), Expect = 5.5
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 31 LTVVDTPGF 39
LT++D PGF
Sbjct: 377 LTLIDVPGF 385
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase,
protein-targeting, transport protein; HET: GDP; 1.97A
{Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*
Length = 328
Score = 24.1 bits (53), Expect = 6.0
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 5 GNNRQGKTTTIEKKSMDIEERGVKLRLTVVDT 36
G N GKTTTI K + ++ G + + DT
Sbjct: 136 GFNGSGKTTTIAKLANWLKNHGFSVVIAASDT 167
>1on3_A Methylmalonyl-COA carboxyltransferase 12S subunit; domain
duplication, multienzyme complex, transcarboxylase; HET:
MCA; 1.90A {Propionibacterium freudenreichii} SCOP:
c.14.1.4 c.14.1.4 PDB: 1on9_A*
Length = 523
Score = 24.4 bits (54), Expect = 6.4
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 31 LTVVDTPGF 39
+ +VD PGF
Sbjct: 365 VQLVDVPGF 373
>1x0u_A Hypothetical methylmalonyl-COA decarboxylase ALPH; lyase; 2.20A
{Sulfolobus tokodaii}
Length = 522
Score = 24.4 bits (54), Expect = 6.5
Identities = 5/9 (55%), Positives = 9/9 (100%)
Query: 31 LTVVDTPGF 39
+++VDTPG+
Sbjct: 364 ISLVDTPGY 372
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA
synthetase, tyrrs, ligase, tyrosine, RNA-binding,
ATP-binding; 2.9A {Mycobacterium tuberculosis}
Length = 432
Score = 24.1 bits (53), Expect = 6.7
Identities = 6/39 (15%), Positives = 15/39 (38%)
Query: 42 SINSEESWRACCSYIDDQFRQYFNDESGLNRKNIVDNRE 80
S+N ++ I Q ++ + + + +N E
Sbjct: 88 SLNEADTVAEWTERIRGQLERFVDFDDSPMGAIVENNLE 126
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus
stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E*
1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A
Length = 419
Score = 24.1 bits (53), Expect = 6.7
Identities = 9/39 (23%), Positives = 22/39 (56%)
Query: 42 SINSEESWRACCSYIDDQFRQYFNDESGLNRKNIVDNRE 80
++N++E+ A + I +Q ++ + E+ N I +N +
Sbjct: 87 TLNAKETVEAWSARIKEQLGRFLDFEADGNPAKIKNNYD 125
>1vrg_A Propionyl-COA carboxylase, beta subunit; TM0716, structural joint
center for structural genomics, JCSG, protein structu
initiative, PSI; HET: MSE; 2.30A {Thermotoga maritima}
SCOP: c.14.1.4 c.14.1.4
Length = 527
Score = 24.1 bits (53), Expect = 7.2
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 31 LTVVDTPGF 39
LT VDTPG+
Sbjct: 369 LTFVDTPGY 377
>2ols_A Phosphoenolpyruvate synthase; MC structural genomics, PSI-2,
protein structure initiative, M center for structural
genomics, transferase; 2.40A {Neisseria meningitidis}
Length = 794
Score = 24.1 bits (52), Expect = 8.3
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 44 NSEESWRACCSYIDDQFRQYFNDE 67
N +R Y+ D F+ F E
Sbjct: 603 NPMLGFRGAARYVADNFKDCFALE 626
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
0.313 0.131 0.375
Gapped
Lambda K H
0.267 0.0502 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,284,061
Number of extensions: 62976
Number of successful extensions: 179
Number of sequences better than 10.0: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 29
Length of query: 86
Length of database: 6,701,793
Length adjustment: 54
Effective length of query: 32
Effective length of database: 5,194,059
Effective search space: 166209888
Effective search space used: 166209888
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.0 bits)