RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14411
(85 letters)
>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 = 29.9 bits (66), Expect = 0.048
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 20 RGALKKLQVTLKQF 33
+ ALKKLQ +LK +
Sbjct: 19 KQALKKLQASLKLY 32
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA
replication, RTH, RAD27, DNA repair; 2.00A
{Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2
PDB: 1a77_A
Length = 326
Score = 28.7 bits (64), Expect = 0.17
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 11 GEAVRYITRRGALKKLQVTLKQFRTLCILKG 41
E I L+ L+++L + I G
Sbjct: 192 KEMPELIELNEVLEDLRISLDDLIDIAIFMG 222
>1ecf_A Glutamine phosphoribosylpyrophosphate amidotransf; purine
biosynthesis, transferase, glycosyltransferase, gluta
amidotransferase; HET: PIN; 2.00A {Escherichia coli}
SCOP: c.61.1.1 d.153.1.1 PDB: 1ecb_A* 1ecc_A* 1ecg_A*
1ecj_A*
Length = 504
Score = 27.5 bits (62), Expect = 0.42
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 9 EAGEAVRYITRRGALKKLQVTLKQFRTLCILKGVY 43
GEA+ YIT G L Q C+ + VY
Sbjct: 225 APGEAI-YITEEGQLFTRQCADNPVSNPCLFEYVY 258
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3
turn-helix, hydrophobic wedge, 3' FLA site,
hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus}
SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Length = 336
Score = 26.3 bits (58), Expect = 1.3
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKG 41
I LK+L +T +Q + IL G
Sbjct: 206 PEIIILESNLKRLGLTREQLIDIAILVG 233
>2o1s_A 1-deoxy-D-xylulose-5-phosphate synthase; DXS, thiamine, isoprenoid,
transferase; HET: TDP; 2.40A {Escherichia coli}
Length = 621
Score = 25.9 bits (58), Expect = 1.9
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 68 DINFLLHEPNLVIM 81
D+++L P +VIM
Sbjct: 436 DLSYLRCIPEMVIM 449
>4fgm_A Aminopeptidase N family protein; structural genomics, PSI-biology,
northeast structural genom consortium, NESG,
peptidase_M61, PDZ; 2.39A {Idiomarina loihiensis L2TR}
Length = 597
Score = 25.7 bits (55), Expect = 1.9
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 6 KKYEAGEAVRY-ITRRGALKKLQVTLK 31
++Y G+ V RR L L++T +
Sbjct: 538 ERYIPGDTVTIHAFRRDELMTLELTWQ 564
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap
binding site, hydrolase-DNA complex, DNA repair,
replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A*
3q8m_A*
Length = 341
Score = 25.6 bits (56), Expect = 2.0
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKG 41
++ L++L + +QF LCIL G
Sbjct: 203 IQEFHLSRILQELGLNQEQFVDLCILLG 230
>2o1x_A 1-deoxy-D-xylulose-5-phosphate synthase; thiamin, isoprenoid, DXS,
transferase; HET: TDP; 2.90A {Deinococcus radiodurans}
Length = 629
Score = 25.5 bits (57), Expect = 2.0
Identities = 5/14 (35%), Positives = 8/14 (57%)
Query: 68 DINFLLHEPNLVIM 81
D++FL P + I
Sbjct: 439 DLSFLRSIPGVRIG 452
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus
amylolyticus}
Length = 363
Score = 25.6 bits (56), Expect = 2.0
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKG 41
I L +L +TL+ + IL G
Sbjct: 221 PELIELDKLLVQLGITLENLIDIGILLG 248
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 25.6 bits (56), Expect = 2.4
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKG 41
++ L++L + +QF LCIL G
Sbjct: 203 IQEFHLSRILQELGLNQEQFVDLCILLG 230
>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 = 25.6 bits (55), Expect = 2.5
Identities = 15/94 (15%), Positives = 30/94 (31%), Gaps = 17/94 (18%)
Query: 4 RQKKYEAGEAV--RYITRRGALKKLQVTLKQFR-----TLCILKG----VYPREPIKRKR 52
R + Y + ++R KL+ L + R + + G + +
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK 175
Query: 53 AQRGKPGVKILYYRKDINF-LLHEPNLVIMRQQR 85
Q KI + +N + P V+ Q+
Sbjct: 176 VQCKMDF-KIFW----LNLKNCNSPETVLEMLQK 204
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis
complex; 1.50A {Homo sapiens} SCOP: a.118.9.2
Length = 157
Score = 25.3 bits (55), Expect = 2.5
Identities = 6/38 (15%), Positives = 17/38 (44%), Gaps = 2/38 (5%)
Query: 2 VIRQKKYEAGEAVRYITRRGALKKLQVTLKQFRTLCIL 39
+I + + +A+R + +R + + + L +L
Sbjct: 43 IINETEEGPKDALRAVKKR--IVGNKNFHEVMLALTVL 78
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair,
DNA-binding, endonuclease, metal-BIND excision repair,
DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus
solfataricus}
Length = 346
Score = 24.9 bits (54), Expect = 3.4
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKGV-YPREPIKR 50
I LKKL +T +Q + IL G Y + I+
Sbjct: 204 PELIETEILLKKLGITREQLIDIGILIGTDYNPDGIRG 241
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication,
transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1
c.120.1.2 PDB: 1mc8_A
Length = 340
Score = 24.9 bits (54), Expect = 3.4
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 14 VRYITRRGALKKLQVTLKQFRTLCILKG 41
I LK+L++T ++ L IL G
Sbjct: 207 PELIILEEVLKELKLTREKLIELAILVG 234
>3beu_A Trypsin, SGT; beta sheets, serine protease, hydrolase, zymogen;
HET: BEN; 1.05A {Streptomyces griseus} PDB: 3i78_A
3i77_A 2fmj_A 1os8_A 1oss_A 1sgt_A
Length = 224
Score = 24.8 bits (55), Expect = 3.8
Identities = 6/20 (30%), Positives = 11/20 (55%), Gaps = 2/20 (10%)
Query: 53 AQRGKPGV--KILYYRKDIN 70
A++GK GV ++ + I
Sbjct: 199 ARKGKYGVYTEVSTFASAIA 218
>2e0n_A Precorrin-2 C20-methyltransferase; cobalt-factor II, tetrapyrrole,
S-adenosylmethi transferase; HET: SAH; 2.00A
{Chlorobaculum tepidum} PDB: 2e0k_A*
Length = 259
Score = 24.6 bits (54), Expect = 5.3
Identities = 8/50 (16%), Positives = 21/50 (42%)
Query: 9 EAGEAVRYITRRGALKKLQVTLKQFRTLCILKGVYPREPIKRKRAQRGKP 58
++V + + + +L+ L T+ ++K R+ + + KP
Sbjct: 149 LQSDSVLVLAQIDEIGELERALVTHSTVVVMKLSTVRDELVSFLERYAKP 198
>3ctd_A Putative ATPase, AAA family; structural genomics, unknown
function, PSI-2, protein structure initiative; 2.50A
{Prochlorococcus marinus subsp} SCOP: a.80.1.2
Length = 213
Score = 24.1 bits (53), Expect = 7.4
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 9 EAGEAVRYITRR 20
EAGE +I RR
Sbjct: 63 EAGEDPNFIFRR 74
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
0.327 0.143 0.412
Gapped
Lambda K H
0.267 0.0425 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,286,478
Number of extensions: 65728
Number of successful extensions: 242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 20
Length of query: 85
Length of database: 6,701,793
Length adjustment: 53
Effective length of query: 32
Effective length of database: 5,221,980
Effective search space: 167103360
Effective search space used: 167103360
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.2 bits)