RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11606
(111 letters)
>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 = 29.4 bits (65), Expect = 0.24
Identities = 21/109 (19%), Positives = 32/109 (29%), Gaps = 22/109 (20%)
Query: 5 KQFRETCKI--QTRQYKALKAQMLATASKEDQKTVIKKLKQDQRRKLALLGDQYEQS--- 59
F +CKI TR + AT + L D+ +LL +
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE--VKSLLLKYLDCRPQD 317
Query: 60 ---------------IAEMLQKQSIRLDESQEVECHHLKERLHYELEIL 93
IAE ++ D + V C L + L +L
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Score = 27.9 bits (61), Expect = 0.85
Identities = 20/121 (16%), Positives = 32/121 (26%), Gaps = 41/121 (33%)
Query: 7 FRETCKIQTRQYKALKAQMLATASKEDQKTVIKKLKQDQRRKLALLGDQYEQ--SIAEML 64
F + I T + + K D V+ KL + + E SI +
Sbjct: 381 FPPSAHIPTILLSLIWFDV----IKSDVMVVVNKL----HKYSLVEKQPKESTISIPSIY 432
Query: 65 QKQSIRLDESQE-----VEC--------------------------HHLKERLHYELEIL 93
+ ++L+ V+ HHLK H E L
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Query: 94 M 94
Sbjct: 493 F 493
Score = 26.7 bits (58), Expect = 2.0
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 57 EQSIAEMLQKQSIRLDESQEVECHH---LKERLH---YELEILMAYQSKNK 101
+++ EMLQK ++D + H +K R+H EL L+ +
Sbjct: 195 PETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
>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 = 28.4 bits (62), Expect = 0.33
Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 9/37 (24%)
Query: 34 QKTVIKKLKQDQRRKLALLGDQYEQSIAEMLQ-KQSI 69
+K +KKL KL Y A L K ++
Sbjct: 18 EKQALKKL--QASLKL------YADDSAPALAIKATM 46
Score = 24.9 bits (53), Expect = 5.8
Identities = 6/20 (30%), Positives = 10/20 (50%), Gaps = 8/20 (40%)
Query: 65 QKQSIR-LDESQEVECHHLK 83
+KQ+++ L S LK
Sbjct: 18 EKQALKKLQAS-------LK 30
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 1.8
Identities = 7/59 (11%), Positives = 28/59 (47%), Gaps = 4/59 (6%)
Query: 31 KEDQKTVIKKLKQDQRRKLALLGDQYEQSIAEMLQKQSIRLD----ESQEVECHHLKER 85
+E+Q+ +++L + ++ ++ + E Q+QS +++ ++ + ++
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQP 149
Score = 25.5 bits (55), Expect = 4.6
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 30 SKEDQKT----VIKKLKQDQRRKLALLGDQYEQSIAEMLQKQSIRLDE 73
++ D+ T I+K +++QR++L L + E +K L+E
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEE 122
>3k7i_B IHH, HHG-2, indian hedgehog protein; alpha+beta sandwich,
autocatalytic cleavage, cell membrane, developmental
protein, disease mutation; 1.44A {Homo sapiens} PDB:
3k7g_B 3k7j_B 3k7h_B 3n1f_A 3n1m_B 3n1o_A 3n1p_B 3m1n_A
3mxw_A 3ho5_H 1vhh_A 3d1m_A 3n1r_A 2wg4_A 2wfx_A 2wfq_A
2wfr_A 2wg3_A*
Length = 187
Score = 25.9 bits (56), Expect = 2.6
Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 58 QSIAEMLQKQSIRLDESQEVECHHLKERLHYE---LEILMAYQSKNKMQAEAQ 107
S+ +R+ + + + HH +E LHYE ++I + + +NK A+
Sbjct: 101 ISVMNQWPGVKLRVTKGWDEDGHHSEESLHYEGRAVDITTSDRDRNKYGLLAR 153
>1lbq_A Ferrochelatase; rossmann fold, PI-helix, lyase; 2.40A
{Saccharomyces cerevisiae} SCOP: c.92.1.1 PDB: 1l8x_A
Length = 362
Score = 25.6 bits (57), Expect = 3.4
Identities = 4/26 (15%), Positives = 12/26 (46%), Gaps = 4/26 (15%)
Query: 78 ECHH----LKERLHYELEILMAYQSK 99
E + ++L ++ + +QS+
Sbjct: 220 EVAATVYNIMQKLKFKNPYRLVWQSQ 245
>3ue3_A Septum formation, penicillin binding protein 3, peptidoglycan
synthetase; transpeptidase, transferase; 2.30A
{Acinetobacter}
Length = 554
Score = 25.3 bits (56), Expect = 4.6
Identities = 11/56 (19%), Positives = 23/56 (41%)
Query: 14 QTRQYKALKAQMLATASKEDQKTVIKKLKQDQRRKLALLGDQYEQSIAEMLQKQSI 69
+ K L LA D+KT+ K + R + +L + A+++ + +
Sbjct: 73 RQLPNKNLNLDELADVVGMDRKTLKKHMTDRARSRYLVLQREVPPQQADLILQHNF 128
>1xdp_A Polyphosphate kinase; PPK, PPK complex with AMPPNP, AMPPNP,
transferase; HET: ATP; 2.50A {Escherichia coli} SCOP:
a.7.15.1 d.322.1.2 d.136.1.4 d.136.1.4 PDB: 1xdo_A*
Length = 687
Score = 25.1 bits (56), Expect = 6.1
Identities = 8/53 (15%), Positives = 18/53 (33%), Gaps = 2/53 (3%)
Query: 21 LKAQMLATASKEDQKTVIKKLKQDQRRKLALLGDQYE--QSIAEMLQKQSIRL 71
LK +++ + + L + Q R L + + + + I L
Sbjct: 56 LKRRIIISEEQGSNSHSRHLLGKIQSRVLKADQEFDGLYNELLLEMARNQIFL 108
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase,
hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli}
SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*
Length = 608
Score = 25.1 bits (55), Expect = 6.4
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 8/52 (15%)
Query: 55 QYEQSIAEMLQKQSIRLDESQEVECHHLKERLHYELEILMAYQSKNKMQAEA 106
E+++A ++ + EV+ + L L+ L + Q A
Sbjct: 114 CNERTVARFFN----EVNHAIEVD----EALLAQTLDKLFPVSDEINWQKVA 157
>2q24_A Putative TETR family transcriptional regulator; structural
genomics, PSI, protein structure initiative; 1.80A
{Streptomyces coelicolor A3}
Length = 194
Score = 25.0 bits (55), Expect = 6.6
Identities = 8/18 (44%), Positives = 14/18 (77%)
Query: 94 MAYQSKNKMQAEAQRNRE 111
M+ +K ++A+AQRNR+
Sbjct: 1 MSDATKRPLRADAQRNRD 18
>3pbt_A Penicillin-binding protein 3; PBP3, hydrolase-antibiotic complex;
HET: UE1; 1.64A {Pseudomonas aeruginosa} PDB: 3pbn_A*
3pbo_A* 3pbr_A* 3pbs_A* 3pbq_A* 3oc2_A 3ocl_A* 3ocn_A*
Length = 538
Score = 24.9 bits (55), Expect = 7.2
Identities = 9/48 (18%), Positives = 18/48 (37%)
Query: 22 KAQMLATASKEDQKTVIKKLKQDQRRKLALLGDQYEQSIAEMLQKQSI 69
+ LA A +D K +++Q+ R+ L E + +
Sbjct: 54 RWPQLAAALGQDTKLFADRIEQNAEREFIYLVRGLTPEQGEGVIALKV 101
>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 = 24.9 bits (55), Expect = 7.4
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 4/26 (15%)
Query: 78 ECHH----LKERLHYELEILMAYQSK 99
E + ERL Y + +QSK
Sbjct: 215 EVSATVQKVMERLEYCNPYRLVWQSK 240
>3m65_A ATP-dependent protease LA 1; coiled-coil, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; 2.60A {Bacillus subtilis}
Length = 209
Score = 24.7 bits (55), Expect = 7.5
Identities = 6/27 (22%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 68 SIRLDESQEV-ECHHLKERLHYELEIL 93
++L + Q++ E +K+RL+ ++ +
Sbjct: 172 PLKLKDKQDILETADVKDRLNKVIDFI 198
>1j1b_A Glycogen synthase kinase-3 beta; complex, TAU, AMPPNP,
transferase; HET: ANP; 1.80A {Homo sapiens} SCOP:
d.144.1.7 PDB: 1i09_A* 1j1c_A* 2jld_A* 3m1s_A* 3pup_A*
3du8_A* 1pyx_A* 1q41_A* 1q3w_A* 1q3d_A* 1q4l_A* 3q3b_A*
1q5k_A* 3i4b_A* 3l1s_A* 1r0e_A* 3zrk_A* 3zrl_A* 3zrm_A*
4dit_A* ...
Length = 420
Score = 24.7 bits (54), Expect = 8.4
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 31 KEDQKTV-IKKLKQDQRRKL 49
+ + V IKK+ QD+R K
Sbjct: 76 CDSGELVAIKKVLQDKRFKN 95
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
0.316 0.126 0.329
Gapped
Lambda K H
0.267 0.0719 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,478,248
Number of extensions: 70580
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 43
Length of query: 111
Length of database: 6,701,793
Length adjustment: 75
Effective length of query: 36
Effective length of database: 4,607,718
Effective search space: 165877848
Effective search space used: 165877848
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.4 bits)