RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6309
(134 letters)
>3v32_B Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse,
cytoplastic, hydrolase; 2.00A {Homo sapiens} PDB: 3v34_A
Length = 185
Score = 111 bits (279), Expect = 3e-32
Identities = 52/88 (59%), Positives = 64/88 (72%)
Query: 46 GILHYTPSRRVDGKLQCAYDDRYIVQVATEYDGVIVSNDRYRDIMQENDKWKATIERRLL 105
IL +TPSRRV GK YDDR+IV++A E DG++VSND YRD+ E +WK IE RLL
Sbjct: 95 KILVFTPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGERQEWKRFIEERLL 154
Query: 106 MFNFVKELLIFPQDPLGRDGPSLDEFLR 133
M++FV + + P DPLGR GPSLD FLR
Sbjct: 155 MYSFVNDKFMPPDDPLGRHGPSLDNFLR 182
>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse,
cytoplastic, hydrolase; 2.00A {Homo sapiens}
Length = 223
Score = 107 bits (267), Expect = 4e-30
Identities = 53/97 (54%), Positives = 65/97 (67%)
Query: 37 FIQLTYFVSGILHYTPSRRVDGKLQCAYDDRYIVQVATEYDGVIVSNDRYRDIMQENDKW 96
I IL +TPSRRV GK YDDR+IV++A E DG++VSND YRD+ E +W
Sbjct: 86 HILRELEKKKILVFTPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGERQEW 145
Query: 97 KATIERRLLMFNFVKELLIFPQDPLGRDGPSLDEFLR 133
K IE RLLM++FV + + P DPLGR GPSLD FLR
Sbjct: 146 KRFIEERLLMYSFVNDKFMPPDDPLGRHGPSLDNFLR 182
>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 = 27.9 bits (61), Expect = 1.3
Identities = 21/123 (17%), Positives = 44/123 (35%), Gaps = 27/123 (21%)
Query: 4 KSGILHYTPSRRVDG-KLQCAYDDRYIPFRSPQVFIQLTYFVSGILHYTPSRRVDGKLQC 62
+S + HY + D L Y D+Y + + + + I H R+
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYF-------YSHIGHHLKNIEHP---ERMTLFRMV 496
Query: 63 AYDDRYIVQVATEYDGVI------VSND-----RYRDIMQENDKWKATIERRL-LMFNFV 110
D R++ + +D + N Y+ + +ND ER + + +F+
Sbjct: 497 FLDFRFL-EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND---PKYERLVNAILDFL 552
Query: 111 KEL 113
++
Sbjct: 553 PKI 555
Score = 27.5 bits (60), Expect = 1.5
Identities = 9/42 (21%), Positives = 14/42 (33%), Gaps = 8/42 (19%)
Query: 84 DRYRDIMQENDKWKATIERRLLMFNFV------KELLIFPQD 119
D ++ + DK IE L + L +FP
Sbjct: 345 DNWKHV--NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
>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 = 27.2 bits (59), Expect = 1.4
Identities = 5/28 (17%), Positives = 12/28 (42%), Gaps = 5/28 (17%)
Query: 14 RRVDGKLQCAYDDRYIPFRSPQVFIQLT 41
+++ L+ Y +P + I+ T
Sbjct: 23 KKLQASLK-----LYADDSAPALAIKAT 45
>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 = 26.9 bits (59), Expect = 2.8
Identities = 6/43 (13%), Positives = 17/43 (39%), Gaps = 2/43 (4%)
Query: 1 MSYKSGILHYTPSRRVDGKLQCAYDDRYIPFRSPQVFIQLTYF 43
M +++ + + ++ ++ FRS + + T F
Sbjct: 1691 MIFETIVDGKLKTEKIFKEIN--EHSTSYTFRSEKGLLSATQF 1731
>3klq_A Putative pilus anchoring protein; CNAB fold, inverse IGG fold,
polyproline-II-like helix, cell; 1.90A {Streptococcus
pyogenes}
Length = 141
Score = 25.9 bits (56), Expect = 3.5
Identities = 10/44 (22%), Positives = 14/44 (31%), Gaps = 1/44 (2%)
Query: 36 VFIQLTYFVSGILHYTPSRRVDGKLQCAYDDR-YIVQVATEYDG 78
F LT+ G Y ++ D + V V YD
Sbjct: 51 SFSPLTFTTVGQYTYRVYQKPSQNKDYQADTTVFDVLVYVTYDE 94
>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA
binding, DNA repair, mismatch recognition; HET: DNA ADP;
2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12
c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A*
1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*
Length = 800
Score = 25.1 bits (56), Expect = 8.3
Identities = 4/20 (20%), Positives = 8/20 (40%)
Query: 84 DRYRDIMQENDKWKATIERR 103
D +R + + +E R
Sbjct: 434 DEWRALADGATDYLERLEVR 453
>1o4w_A PIN (PILT N-terminus) domain; structural genomics, joint CEN
structural genomics, JCSG, protein structure initiative,
PS translation; 1.90A {Archaeoglobus fulgidus} SCOP:
c.120.1.1
Length = 147
Score = 24.8 bits (54), Expect = 9.0
Identities = 5/22 (22%), Positives = 14/22 (63%)
Query: 64 YDDRYIVQVATEYDGVIVSNDR 85
D +++ A +Y ++++ND+
Sbjct: 98 EGDPSLIEAAEKYGCILITNDK 119
>3l7i_A Teichoic acid biosynthesis protein F; GT-B fold, monotopic membrane
protein, structural protein; 2.70A {Staphylococcus
epidermidis} PDB: 3l7j_A 3l7k_A* 3l7l_A* 3l7m_A*
Length = 729
Score = 24.9 bits (54), Expect = 9.9
Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 15/75 (20%)
Query: 26 DRYIPFRSPQVFIQLTYFVSGILHYTPSRRV-----DGKLQCAYDDRY---IVQVATEYD 77
Y+ + Q +IQ H TP +R+ ++ +Y + + +D
Sbjct: 428 PLYLNKKENQTYIQTW-------HGTPLKRLANDMKVVRMPGTTTPKYKRNFNRETSRWD 480
Query: 78 GVIVSNDRYRDIMQE 92
+I N +I +
Sbjct: 481 YLISPNRYSTEIFRS 495
>3i65_A Dihydroorotate dehydrogenase homolog, mitochondrial;
triazolopyrimidine,inhibitor, DSM1, FAD, flavoprotein,
membrane, mitochondrion; HET: JZ8 FMN ORO LDA; 2.00A
{Plasmodium falciparum 3D7} PDB: 3i68_A* 3i6r_A* 3o8a_A*
3sfk_A*
Length = 415
Score = 24.9 bits (55), Expect = 10.0
Identities = 8/17 (47%), Positives = 10/17 (58%), Gaps = 2/17 (11%)
Query: 69 IVQVATEY--DGVIVSN 83
I V E DG+I+SN
Sbjct: 288 IADVLLETNIDGMIISN 304
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
0.326 0.144 0.442
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,192,724
Number of extensions: 122569
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 259
Number of HSP's successfully gapped: 20
Length of query: 134
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 51
Effective length of database: 4,384,350
Effective search space: 223601850
Effective search space used: 223601850
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 (21.6 bits)
S2: 52 (23.6 bits)