RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1749
(87 letters)
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase;
NMR {Homo sapiens} SCOP: g.44.1.1
Length = 60
Score = 46.6 bits (111), Expect = 6e-09
Identities = 20/41 (48%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 17 IKCCPMCSVPIEKDEGCAQMLCK--RCKHVFCWYCLASLDD 55
K CP C V IEKD GC M+C+ CK FCW CL +
Sbjct: 6 TKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEP 46
>2ct7_A Ring finger protein 31; IBR, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: g.44.1.4
Length = 86
Score = 29.2 bits (65), Expect = 0.056
Identities = 8/30 (26%), Positives = 11/30 (36%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRCKHVFCWYC 49
C CS + + C +C FC C
Sbjct: 28 CAQCSFGFIYEREQLEATCPQCHQTFCVRC 57
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 29.3 bits (65), Expect = 0.12
Identities = 9/33 (27%), Positives = 14/33 (42%), Gaps = 6/33 (18%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRCKHVFCWYCLAS 52
C +C+ E + + C H+ C CL S
Sbjct: 335 CKICA------ENDKDVKIEPCGHLMCTSCLTS 361
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.5 bits (63), Expect = 0.19
Identities = 11/57 (19%), Positives = 18/57 (31%), Gaps = 15/57 (26%)
Query: 13 DSELIKCCPMCSVP---IEKDEGCAQMLCKRCKHVFCWYCLASLDDDFLLRHYDKGP 66
+ ++ CP C V I + ++C C V L D + D
Sbjct: 17 NLNIVLTCPECKVYPPKIVERFSEGDVVCALCGLV--------LSDKLV----DTRS 61
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 27.5 bits (61), Expect = 0.20
Identities = 12/44 (27%), Positives = 16/44 (36%), Gaps = 1/44 (2%)
Query: 8 GGATFDSELIKCCPMCSVPI-EKDEGCAQMLCKRCKHVFCWYCL 50
G CP+C E + ++ C HVFC CL
Sbjct: 1 GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCL 44
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 26.7 bits (59), Expect = 0.38
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 20 CPMCSVPI-EKDEGCAQMLCKRCKHVFCWYCL 50
CP+C E + ++ C HVFC CL
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCL 37
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 26.4 bits (58), Expect = 0.53
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 20 CPMC-SVPIEKDEGCAQMLCKRCKHVFCWYCL 50
CP+C E + ++ C HVFC CL
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCL 49
>2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all
beta, structural genomics, protein structure
initiative; NMR {Streptomyces coelicolor}
Length = 56
Score = 25.9 bits (58), Expect = 0.61
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 11 TFDSEL--IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
++ L I CP C P+E+ + + C +
Sbjct: 2 PLEAGLLEILACPACHAPLEERDAELICTGQDCGLAY 38
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 26.3 bits (57), Expect = 0.81
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 17 IKCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYC 49
+ C C +PI+ CKHVFC+ C
Sbjct: 1 VHFCDKCGLPIK-----VYGRMIPCKHVFCYDC 28
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 26.7 bits (58), Expect = 0.89
Identities = 8/52 (15%), Positives = 12/52 (23%), Gaps = 2/52 (3%)
Query: 1 MEPWFQMGGATFDSELIKCCPMCSVPIEKDEGCAQMLC--KRCKHVFCWYCL 50
M W + C +C + C +C CL
Sbjct: 292 MPDWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCL 343
>1rqb_A Transcarboxylase 5S subunit; TIM-barrel, carbamylated lysine,
transfera; HET: KCX; 1.90A {Propionibacterium
freudenreichii subspshermanii} SCOP: a.5.7.2 c.1.10.5
PDB: 1rqe_A 1rqh_A* 1rr2_A* 1u5j_A* 1s3h_A*
Length = 539
Score = 26.8 bits (60), Expect = 0.93
Identities = 8/14 (57%), Positives = 10/14 (71%), Gaps = 3/14 (21%)
Query: 1 MEPWFQMGGATFDS 14
+E W GGAT+DS
Sbjct: 64 VECW---GGATYDS 74
>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding,
biotin, disease mutation, gluconeogenesis, ligase, lipid
synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens}
PDB: 3bg9_A
Length = 718
Score = 26.5 bits (59), Expect = 1.0
Identities = 9/14 (64%), Positives = 9/14 (64%), Gaps = 3/14 (21%)
Query: 1 MEPWFQMGGATFDS 14
ME W GGATFD
Sbjct: 144 MENW---GGATFDV 154
>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase
structure, B enzymes, Zn2+ binding site, TIM-barrel
fold, lyase; 1.70A {Vibrio cholerae}
Length = 464
Score = 26.4 bits (59), Expect = 1.2
Identities = 9/14 (64%), Positives = 10/14 (71%), Gaps = 3/14 (21%)
Query: 1 MEPWFQMGGATFDS 14
+E W GGATFDS
Sbjct: 47 LECW---GGATFDS 57
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 25.9 bits (56), Expect = 1.7
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 5/37 (13%)
Query: 15 ELIKCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYCLA 51
+ +K C +C + + + C+ C C+A
Sbjct: 178 DAVKICNICHSLLIQGQ-----SCETCGIRMHLPCVA 209
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics,
PSI-2, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: b.171.1.1
Length = 67
Score = 24.9 bits (55), Expect = 1.9
Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 11 TFDSEL--IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
+ D +L + CP P+ E ++ +R +
Sbjct: 2 SLDPQLLEVLACPKDKGPLRYLESEQLLVNERLNLAY 38
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 24.9 bits (54), Expect = 2.0
Identities = 7/38 (18%), Positives = 12/38 (31%), Gaps = 5/38 (13%)
Query: 15 ELIKCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYCLAS 52
+ +K C +C C+ C C+A
Sbjct: 13 DAVKICNIC-----HSLLIQGQSCETCGIRMHLPCVAK 45
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 25.1 bits (54), Expect = 2.2
Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 7 MGGATFDSELIKCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYCL 50
M + E CP+C P+E D+ C + C +C
Sbjct: 1 MSRSPDAKEDPVECPLCMEPLEIDDINFFPCT--CGYQICRFCW 42
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; HET: MSE; 2.29A {Homo
sapiens}
Length = 100
Score = 25.2 bits (55), Expect = 2.3
Identities = 5/15 (33%), Positives = 8/15 (53%)
Query: 36 MLCKRCKHVFCWYCL 50
LC C + C+ C+
Sbjct: 36 RLCPHCSKLCCFSCI 50
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 24.4 bits (53), Expect = 3.3
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 40 RCKHVFCWYCL 50
+C+H FC C
Sbjct: 32 KCRHYFCESCA 42
>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain,
leukemia, apoptosis, chromati regulator, DNA-binding,
isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A*
3lqj_A* 2kyu_A
Length = 183
Score = 24.9 bits (53), Expect = 3.6
Identities = 8/31 (25%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 20 CPMCSVPIEKDEGCAQML-CKRCKHVFCWYC 49
CP+C + D+ ++M+ C +C C
Sbjct: 5 CPLCDKCYDDDDYESKMMQCGKCDRWVHSKC 35
>2pk7_A Uncharacterized protein; NESG, PLR1, putative
tetraacyldisaccharide-1-P 4-kinase, Q4K structural
genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP:
b.171.1.1
Length = 69
Score = 23.8 bits (52), Expect = 4.0
Identities = 5/27 (18%), Positives = 12/27 (44%)
Query: 19 CCPMCSVPIEKDEGCAQMLCKRCKHVF 45
CP+C P++ +++ K +
Sbjct: 10 ACPICKGPLKLSADKTELISKGAGLAY 36
>2dtg_E Insulin receptor; IR ectodomain, X-RAY crystallography, hormone
receptor/immune system complex; 3.80A {Homo sapiens}
SCOP: b.1.2.1 b.1.2.1 b.1.2.1 c.10.2.5 c.10.2.5 g.3.9.1
PDB: 3loh_E
Length = 897
Score = 24.9 bits (53), Expect = 4.4
Identities = 5/32 (15%), Positives = 9/32 (28%)
Query: 18 KCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYC 49
+C +C + C + CW
Sbjct: 154 ECGDICPGTAKGKTNCPATVINGQFVERCWTH 185
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 24.0 bits (52), Expect = 4.6
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 41 CKHVFCWYCL 50
CKHVFC+ C+
Sbjct: 33 CKHVFCYLCV 42
>2jmo_A Parkin; IBR, E3 ligase, zinc binding domain, RBR; NMR {Homo
sapiens}
Length = 80
Score = 23.9 bits (51), Expect = 4.9
Identities = 11/61 (18%), Positives = 18/61 (29%), Gaps = 14/61 (22%)
Query: 19 CCPMCSVPIEKDEGCAQMLCKR-----CKHVFCWYCLASLDDDFLLRHYDKGPCKNKLGH 73
P C + + ++ C+ C FC C + Y +G C
Sbjct: 29 PRPGCGAGLLPEPDQRKVTCEGGNGLGCGFAFCRECKEA---------YHEGECSAVFEA 79
Query: 74 S 74
S
Sbjct: 80 S 80
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI,
structure initiative, northeast structural genomics
consort NESG; NMR {Neisseria meningitidis}
Length = 68
Score = 23.7 bits (52), Expect = 5.0
Identities = 5/35 (14%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 13 DSEL--IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
+ + I CP+ +E + ++ ++ K +
Sbjct: 2 EKKFLDILVCPVTKGRLEYHQDKQELWSRQAKLAY 36
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics
consortium, beta, PSI-2, protein structure initiative;
NMR {Bordetella bronchiseptica RB50}
Length = 70
Score = 23.4 bits (51), Expect = 6.0
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 13 DSEL--IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
+S L I CP+C +E A+++C + F
Sbjct: 2 ESRLLDILVCPVCKGRLEFQRAQAELVCNADRLAF 36
>2owo_A DNA ligase; protein-DNA complex, ligase-DNA complex; HET: DNA OMC
AMP; 2.30A {Escherichia coli}
Length = 671
Score = 24.4 bits (54), Expect = 6.5
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 3/27 (11%)
Query: 15 ELIKCCPMCSVPIEKDEGCAQMLCKRC 41
CP+C +E+ EG A RC
Sbjct: 403 VFPTHCPVCGSDVERVEGEAVA---RC 426
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 23.1 bits (50), Expect = 7.2
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 5/33 (15%)
Query: 18 KCCPMCSVPIEKDEGCAQMLCKRCKHVFCWYCL 50
+ CP+C + C H FC+ C+
Sbjct: 6 ERCPICLEDPSNYS-----MALPCLHAFCYVCI 33
>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein
4, UIP4, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.44.1.1
Length = 94
Score = 23.7 bits (51), Expect = 7.9
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 3/31 (9%)
Query: 20 CPMCSVPIEKDEGCAQMLCKRCKHVFCWYCL 50
C +C ++ +C+ +FC CL
Sbjct: 8 CKLCLGEYPVEQM---TTIAQCQCIFCTLCL 35
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 24.0 bits (52), Expect = 8.6
Identities = 5/17 (29%), Positives = 7/17 (41%)
Query: 38 CKRCKHVFCWYCLASLD 54
C RC+ CL +
Sbjct: 377 CYRCRAPAHKECLGRVP 393
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 23.8 bits (51), Expect = 8.8
Identities = 4/12 (33%), Positives = 5/12 (41%)
Query: 38 CKRCKHVFCWYC 49
C C + C C
Sbjct: 394 CHACGKIVCRNC 405
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes
structural genomics, PSI-2, protein structure
initiative; 1.90A {Chromobacterium violaceum} SCOP:
b.171.1.1
Length = 68
Score = 23.0 bits (50), Expect = 9.4
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 13 DSEL--IKCCPMCSVPIEKDEGCAQMLCKRCKHVF 45
D++ I CP+C P+ D+ +++CK + F
Sbjct: 2 DAKFLEILVCPLCKGPLVFDKSKDELICKGDRLAF 36
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
0.328 0.140 0.514
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,326,735
Number of extensions: 61585
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 122
Length of query: 87
Length of database: 6,701,793
Length adjustment: 55
Effective length of query: 32
Effective length of database: 5,166,138
Effective search space: 165316416
Effective search space used: 165316416
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 (21.8 bits)
S2: 51 (23.8 bits)