RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14099
(224 letters)
>2eqf_A Tumor necrosis factor, alpha-induced protein 3; ZF-A20 domain,
putative DNA-binding protein A20, zinc finger protein
A20, structural genomics; NMR {Homo sapiens}
Length = 46
Score = 26.6 bits (58), Expect = 1.3
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 13/44 (29%)
Query: 115 RCLIPECEHAANTSYLTPWLNHAVPYKDGYPQNCFRYGHI-GEG 157
RC P C+H N +GY CF++ + G G
Sbjct: 11 RCRAPACDHFGNAK------------CNGYCNECFQFKQMYGSG 42
>2xyk_A 2-ON-2 hemoglobin; oxygen storage-transport complex; HET: HEM;
2.10A {Agrobacterium tumefaciens}
Length = 133
Score = 27.6 bits (61), Expect = 1.8
Identities = 6/32 (18%), Positives = 10/32 (31%)
Query: 39 DMFPTPLHHVVFRQTLFLIGITGITSAYTVLY 70
+ P L + +L G G Y +
Sbjct: 40 AIHPADLSGSEAKFYDYLTGYLGGPPVYVEKH 71
>2zfn_A RTT109, regulator of TY1 transposition protein 109; histone H3
lysine 56 acetylation, DNA damage, DNA repair, NU
transcription; HET: ALY ACO; 1.90A {Saccharomyces
cerevisiae} PDB: 2rim_A 3q33_A* 3q35_A* 3q66_C* 3q68_C*
3d35_A* 3qm0_A* 3cz7_A*
Length = 460
Score = 27.9 bits (61), Expect = 2.7
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 112 GDSRCLIPECEHAANTSYLTPWLNHAVP 139
S L+P H A L +L+ +P
Sbjct: 9 HHSSGLVPRGSHMAAMMSLNDFLSSVLP 36
>3i3q_A Alpha-ketoglutarate-dependent dioxygenase ALKB; beta jellyroll, DNA
damage, DNA repair, iron, M binding, oxidoreductase;
HET: AKG; 1.40A {Escherichia coli} PDB: 2fd8_A* 2fdg_A*
2fdh_A* 2fdf_A* 2fdj_A 2fdk_A* 2fdi_A* 3i2o_A* 3i3m_A*
3i49_A* 3t4h_B* 3t3y_A* 3t4v_A* 3o1t_A* 3o1o_A* 3o1m_A*
3o1r_A* 3o1s_A* 3o1p_A* 3o1u_A* ...
Length = 211
Score = 27.3 bits (60), Expect = 4.2
Identities = 12/73 (16%), Positives = 22/73 (30%), Gaps = 6/73 (8%)
Query: 97 QVIAPQVFLLLGFVLGDSRCLIPECEHAANTSYLTPWLNHAVPYKDGYP---QNCFRYGH 153
+ +A +L F + LI + A+ +P+ P NC G
Sbjct: 3 EPLAAGAVILRRFAFNAAEQLIRDINDVASQ---SPFRQMVTPGGYTMSVAMTNCGHLGW 59
Query: 154 IGEGNGCNPTSFN 166
G + +
Sbjct: 60 TTHRQGYLYSPID 72
>2jjq_A Uncharacterized RNA methyltransferase pyrab10780; metal-binding,
tRNA methyltransferase, S-adenosyl-L-methionine, iron,
4Fe-4S, iron-sulfur; HET: SAH; 1.8A {Pyrococcus abyssi}
PDB: 2vs1_A*
Length = 425
Score = 27.1 bits (61), Expect = 4.7
Identities = 8/20 (40%), Positives = 11/20 (55%), Gaps = 3/20 (15%)
Query: 30 YTVLYVNTVDMFP-TPLHHV 48
Y + + +DMFP T HV
Sbjct: 401 YRIDEIVALDMFPHT--PHV 418
>3hde_A Lysozyme; antimicrobial, bacteriolytic enzyme, glycosidase,
hydrolase, late protein; 1.95A {Enterobacteria phage
P21}
Length = 165
Score = 26.6 bits (58), Expect = 5.7
Identities = 14/87 (16%), Positives = 24/87 (27%), Gaps = 2/87 (2%)
Query: 136 HAVPYKDGYPQNCFRYGHIGEGNGCNPTSFNKSHVIKCNAWVFQTDEVNLLNEFNLECDE 195
+PYKD +GH G+ ++ K+ T + ++ E
Sbjct: 38 SYIPYKDIVGVWTVCHGHTGKDIML-GKTYTKAECKALLNKDLATVARQINPYIKVDIPE 96
Query: 196 NRWKLTIVGSID-GLGALLGSPFCAFI 221
+ G G S I
Sbjct: 97 TMRGALYSFVYNVGAGNFRTSTLLRKI 123
>1uwv_A 23S rRNA (uracil-5-)-methyltransferase RUMA; RNA modification,
iron-sulfur cluster, RNA processing; 1.95A {Escherichia
coli} SCOP: b.40.4.12 c.66.1.40 PDB: 2bh2_A*
Length = 433
Score = 26.7 bits (60), Expect = 6.2
Identities = 8/20 (40%), Positives = 12/20 (60%), Gaps = 3/20 (15%)
Query: 30 YTVLYVNTVDMFP-TPLHHV 48
YT+ + +DMFP T H+
Sbjct: 406 YTIARLAMLDMFPHT--GHL 423
>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 = 26.7 bits (58), Expect = 7.1
Identities = 40/239 (16%), Positives = 62/239 (25%), Gaps = 77/239 (32%)
Query: 9 MDHVV-----FRQTLFLIGITGITSAYTV-LYVNTV-----DMFPTPLHHVVFRQTLFLI 57
+DH++ TL L V +V V +P+ RQ
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK-TEQRQP---- 105
Query: 58 GITGITSAYT----VLYVNTVDMFP----------TPLRQSL--------LAFCSMIGRI 95
+ +T Y LY N +F LRQ+L + ++G
Sbjct: 106 --SMMTRMYIEQRDRLY-NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG-S 161
Query: 96 G-QVIAPQVFLLLGFV---------LGDSRCLIPEC--EHAANTSY-LTPWLNHAVPYKD 142
G +A V L L C PE E Y + P +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221
Query: 143 GYPQNCFRYGHIGEGNGCNPTSFNKSHVIKCNAWVFQT-----DEV---NLLNEFNLEC 193
+ ++K + ++ V N FNL C
Sbjct: 222 NIKLRI------------HSIQAELRRLLK--SKPYENCLLVLLNVQNAKAWNAFNLSC 266
>2w5q_A Processed glycerol phosphate lipoteichoic acid synthase;
transmembrane, cell WALL biogenesis/degradation, LTAS,
membrane, secreted; 1.20A {Staphylococcus aureus} PDB:
2w5s_A* 2w5t_A* 2w5r_A*
Length = 424
Score = 26.4 bits (58), Expect = 8.5
Identities = 17/76 (22%), Positives = 26/76 (34%), Gaps = 12/76 (15%)
Query: 4 IVCIWMDHVVFRQTLFLIGITGITSAYTVLYVNTVDMFPTPLHHVVFRQTLFLIGITGIT 63
++ I+ DH GI+ + + TP +T F I I G +
Sbjct: 252 VIMIYGDH------------YGISENHNNAMEKLLGEKITPAKFTDLNRTGFWIKIPGKS 299
Query: 64 SAYTVLYVNTVDMFPT 79
Y VD+ PT
Sbjct: 300 GGINNEYAGQVDVMPT 315
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 0.142 0.465
Gapped
Lambda K H
0.267 0.0332 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,509,305
Number of extensions: 199321
Number of successful extensions: 408
Number of sequences better than 10.0: 1
Number of HSP's gapped: 408
Number of HSP's successfully gapped: 12
Length of query: 224
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,188,903
Effective search space: 561313002
Effective search space used: 561313002
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: 55 (26.1 bits)