RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6684
(77 letters)
>3ny3_A E3 ubiquitin-protein ligase UBR2; zinc finger-like, ubiquitin
ligase, protein binding, lygase,; 1.60A {Homo sapiens}
PDB: 3ny2_A 3ny1_A
Length = 75
Score = 33.0 bits (75), Expect = 0.001
Identities = 8/35 (22%), Positives = 11/35 (31%), Gaps = 1/35 (2%)
Query: 42 FYRCQTCHTTDRNAICVNCIK-SCHAGHDVAFIRH 75
Y C+ C +C+ C S H H
Sbjct: 17 TYSCRDCAVDPTCVLCMECFLGSIHRDHRYRMTTS 51
>3nis_A E3 ubiquitin-protein ligase UBR1; E3 ubiquitin ligase, UBR BOX,
zinc-binding protein, N-END RU ligase, metal binding
protein; 1.68A {Saccharomyces cerevisiae} PDB: 3nii_A
3nij_A 3nih_A 3nik_A 3nim_A 3nin_A 3nil_A 3nit_A
Length = 82
Score = 32.3 bits (73), Expect = 0.003
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 1/37 (2%)
Query: 42 FYRCQTCHTTDRNAICVNCIK-SCHAGHDVAFIRHDR 77
YRC C D +C++C H H V
Sbjct: 21 LYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTE 57
>1i8o_A Cytochrome C2; electron transport, heme, ammonia, oxidized; HET:
HEC; 1.15A {Rhodopseudomonas palustris} SCOP: a.3.1.1
PDB: 1fj0_A* 1hh7_A* 1i8p_A*
Length = 114
Score = 25.8 bits (57), Expect = 1.0
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 42 FYRCQTCHTTDRNAI 56
F +C TCH D+N +
Sbjct: 10 FKQCMTCHRADKNMV 24
>1qn2_A Cytochrome CH; electron transport; HET: HEC; 2.01A
{Methylobacterium extorquens} SCOP: a.3.1.1
Length = 100
Score = 25.6 bits (57), Expect = 1.3
Identities = 5/15 (33%), Positives = 9/15 (60%)
Query: 42 FYRCQTCHTTDRNAI 56
F C+ CH ++N +
Sbjct: 11 FAPCKACHNFEKNGV 25
>2csv_A Tripartite motif protein 29; ZF-B_BOX domain, TRIM29,
ataxia-telangiectasia group D-associated protein, ATDC,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.43.1.1
Length = 72
Score = 25.0 bits (55), Expect = 1.5
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 49 HTTDRNAICVNCIKSCHAGHDVA 71
TD+ IC C+ H H
Sbjct: 32 CQTDQTCICYLCMFQEHKNHSTV 54
>2dja_A Midline-2; tripartite motif protein 1, ZF-B_BOX, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: g.43.1.1 PDB: 2dq5_A
Length = 84
Score = 25.2 bits (55), Expect = 1.6
Identities = 8/30 (26%), Positives = 10/30 (33%), Gaps = 5/30 (16%)
Query: 45 CQTCHTTDRNAICVNCIKSC-HAGHDVAFI 73
C + IC C H H VA +
Sbjct: 33 CVSDDQ----LICALCKLVGRHRDHQVASL 58
>1d4d_A Flavocytochrome C fumarate reductase; oxidoreductase; HET: HEM
FAD; 2.50A {Shewanella oneidensis} SCOP: a.138.1.3
c.3.1.4 d.168.1.1 PDB: 1d4e_A* 1d4c_A*
Length = 572
Score = 25.1 bits (55), Expect = 2.5
Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 11/27 (40%)
Query: 45 CQTCHTTDR-----------NAICVNC 60
C +CH +D+ N CV+C
Sbjct: 16 CDSCHVSDKGGVTNDNLTHENGQCVSC 42
>3a8n_A TIAM-1, T-lymphoma invasion and metastasis-inducing protein 1;
guanine nucleotide exchange factor, guanine-nucleotide
releasing factor, lipoprotein; 4.50A {Mus musculus}
Length = 279
Score = 24.9 bits (53), Expect = 3.4
Identities = 9/62 (14%), Positives = 17/62 (27%), Gaps = 12/62 (19%)
Query: 5 EGKKELYLKENWDVQRAVTSGQCLYKISSYTSFPMHDFYRCQTCHTTDRNAICVNCIKSC 64
K E + W G L+ FY D N++ + +
Sbjct: 28 NKKVESATRRKWKHYWVSLKGCTLF------------FYETDGRSGIDHNSVPKHAVWVE 75
Query: 65 HA 66
++
Sbjct: 76 NS 77
>2yvr_A Transcription intermediary factor 1-beta; ZF-B_BOX domain,
structural genomics, NPPSFA; 1.80A {Homo sapiens}
Length = 50
Score = 23.6 bits (51), Expect = 3.4
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 45 CQTCHTTDRNAICVNCIKSCHAGHDVAFIR 74
C++C T C +C + H H F+
Sbjct: 21 CESCDT----LTCRDCQLNAHKDHQYQFLE 46
>1y0p_A Fumarate reductase flavoprotein subunit; flavocytochrome,
mesaconate, oxidoreductase; HET: HEM FAD; 1.50A
{Shewanella frigidimarina} SCOP: a.138.1.3 c.3.1.4
d.168.1.1 PDB: 1qjd_A* 2b7s_A* 1jry_A* 2b7r_A* 1ksu_A*
1jrz_A* 1jrx_A* 1m64_A* 1p2h_A* 1p2e_A* 1kss_A* 1e39_A*
1q9i_A* 1lj1_A*
Length = 571
Score = 24.7 bits (54), Expect = 3.8
Identities = 9/26 (34%), Positives = 11/26 (42%), Gaps = 10/26 (38%)
Query: 45 CQTCHTTDR----------NAICVNC 60
C +CHT D N CV+C
Sbjct: 14 CDSCHTPDGELSNDSLTYENTQCVSC 39
>1zlg_A Anosmin 1; insulin-like growth factor receptor Cys-rich fold,
WHEY acidic protein fold, fibronectin type III fold,
hormone- growth factor complex; NMR {Homo sapiens}
Length = 680
Score = 24.5 bits (52), Expect = 5.0
Identities = 12/53 (22%), Positives = 20/53 (37%)
Query: 18 VQRAVTSGQCLYKISSYTSFPMHDFYRCQTCHTTDRNAICVNCIKSCHAGHDV 70
VQRA + +CL + S F + + C C++ C D+
Sbjct: 21 VQRARCASRCLSLQITRISAFFQHFQNNGSLVWCQNHKQCSKCLEPCKESGDL 73
>1h21_A Split-soret cytochrome C; dimeric DI-heme cytochrome, stacked heme
arrangement, novel fold, novel iron-sulfur centre; HET:
HEC; 2.5A {Desulfovibrio desulfuricans} SCOP: a.138.1.3
Length = 247
Score = 24.0 bits (51), Expect = 5.7
Identities = 9/31 (29%), Positives = 12/31 (38%), Gaps = 6/31 (19%)
Query: 45 CQTCHTTDRNAI-----CVNCIKSCHAGHDV 70
C CH T N ++C CH+G
Sbjct: 209 CGECHMTKGNDANWAKGIMDC-TPCHSGTAA 238
>1qo8_A Flavocytochrome C3 fumarate reductase; oxidoreductase; HET: HEM
FAD; 2.15A {Shewanella frigidimarina} SCOP: a.138.1.3
c.3.1.4 d.168.1.1
Length = 566
Score = 24.3 bits (53), Expect = 5.8
Identities = 8/25 (32%), Positives = 10/25 (40%), Gaps = 9/25 (36%)
Query: 45 CQTCHTTD---------RNAICVNC 60
CQ+CH NA C +C
Sbjct: 15 CQSCHAKPIKVTDSETHENAQCKSC 39
>1jdl_A C552, cytochrome C2, ISO-2; alpha helix, electron transport; HET:
HEM; 1.70A {Rhodospirillum centenum} SCOP: a.3.1.1
Length = 121
Score = 23.5 bits (51), Expect = 8.9
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 42 FYRCQTCHTTDRNA 55
F +C CH +A
Sbjct: 12 FKKCMACHRVGPDA 25
>3c2c_A Cytochrome C2; electron transport protein (cytochrome); HET: HEM;
1.68A {Rhodospirillum rubrum} SCOP: a.3.1.1 PDB:
2c2c_A*
Length = 112
Score = 23.0 bits (50), Expect = 9.1
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 42 FYRCQTCHTTDRNA 55
+C CHT D+
Sbjct: 11 SKKCLACHTFDQGG 24
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 23.7 bits (50), Expect = 9.6
Identities = 2/17 (11%), Positives = 6/17 (35%)
Query: 44 RCQTCHTTDRNAICVNC 60
+C C + + +
Sbjct: 217 KCSKCDMRENLWLNLTD 233
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 0.137 0.461
Gapped
Lambda K H
0.267 0.0316 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,168,507
Number of extensions: 50837
Number of successful extensions: 327
Number of sequences better than 10.0: 1
Number of HSP's gapped: 320
Number of HSP's successfully gapped: 54
Length of query: 77
Length of database: 6,701,793
Length adjustment: 46
Effective length of query: 31
Effective length of database: 5,417,427
Effective search space: 167940237
Effective search space used: 167940237
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 (24.6 bits)