RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2414
(114 letters)
>2ct1_A Transcriptional repressor CTCF; CCCTC-BINDING factor, zinc
finger, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: g.37.1.1 g.37.1.1
Length = 77
Score = 38.3 bits (90), Expect = 3e-05
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 8/55 (14%)
Query: 37 YKCVICLKSVRSRWHHLQTH-------FSRNHKCPYCESVYSRVDTLKLHAKRVH 84
Y+C IC ++ ++ H CP+C++V +R L +H ++ H
Sbjct: 16 YECYICHARF-TQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQH 69
>2adr_A ADR1; transcription regulation, zinc finger,; NMR {Saccharomyces
cerevisiae} SCOP: g.37.1.1 g.37.1.1
Length = 60
Score = 35.5 bits (83), Expect = 2e-04
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
+ C +C ++ +R HL+ H R+H C C ++R D L HA+++H
Sbjct: 3 FVCEVCTRAF-ARQEHLKRH-YRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>2drp_A Protein (tramtrack DNA-binding domain); protein-DNA complex,
double helix, transcription/DNA complex; HET: DNA;
2.80A {Drosophila melanogaster} SCOP: g.37.1.1 g.37.1.1
Length = 66
Score = 35.2 bits (82), Expect = 4e-04
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 37 YKCVICLKSVRSRWH---HLQTHFSRNHK---CPYCESVYSRVDTLKLHAKRVHGL 86
Y+C +C + + H T RN K CP+C ++R D + H K +H +
Sbjct: 11 YRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIHKI 66
>2wbt_A B-129; zinc finger; 2.70A {Sulfolobus virus 1}
Length = 129
Score = 36.1 bits (82), Expect = 5e-04
Identities = 14/77 (18%), Positives = 28/77 (36%), Gaps = 4/77 (5%)
Query: 16 PFITRNNTDSIFYPDPASPGMYKCVICLKSVRSRWHHLQTHFSRNHK---CPYCESVYSR 72
P + ++ + + C +CL S L+ H CP C+ ++
Sbjct: 54 PQLLDESSYLYRLLASKAISQFVCPLCLMPFSSS-VSLKQHIRYTEHTKVCPVCKKEFTS 112
Query: 73 VDTLKLHAKRVHGLGIS 89
D+ H + H + +S
Sbjct: 113 TDSALDHVCKKHNICVS 129
>1a1h_A QGSR zinc finger peptide; complex (zinc finger/DNA), DNA-binding
protein, transcription/DNA complex; HET: DNA; 1.60A
{Mus musculus} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB:
1jk2_A 1jk1_A 1a1g_A* 1a1f_A* 1a1i_A* 1a1j_A* 1a1k_A*
1aay_A* 1a1l_A* 1p47_A 1zaa_C* 1g2f_C 1g2d_C
Length = 90
Score = 32.8 bits (76), Expect = 0.004
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 9/54 (16%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
++C IC+++ SR HL TH R H C C ++R D K H ++H
Sbjct: 35 FQCRICMRNF-SRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKRH-TKIH 85
>2d9h_A Zinc finger protein 692; ZF-C2H2 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 78
Score = 31.6 bits (72), Expect = 0.011
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 37 YKCVICLKSVRSRWH---HLQTHFS----RNHKCPYCESVYSRVDTLKLHAKRVHG 85
+C IC + R + H + H C +C + + D++ H + H
Sbjct: 8 LQCEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHP 63
>2yt9_A Zinc finger-containing protein 1; C2H2, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.37.1.1
g.37.1.1 g.37.1.1
Length = 95
Score = 31.3 bits (72), Expect = 0.018
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH--------KCPYCESVYSRVDTLKLHAKRVH 84
Y C +C R + H R+H C C +SR D L H K+VH
Sbjct: 36 YSCPVCGLRF-KRKDRMSYH-VRSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVH 89
>1f2i_G Fusion of N-terminal 17-MER peptide extension to ZIF12; zinc
finger, dimer, protein-DNA complex, cooperativity,
transcription/DNA complex; 2.35A {Mus musculus} SCOP:
g.37.1.1 g.37.1.1
Length = 73
Score = 30.4 bits (69), Expect = 0.030
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 8/53 (15%)
Query: 37 YKCVI--CLKSVRSRWHHLQTHFS-----RNHKCPYCESVYSRVDTLKLHAKR 82
Y C + C + SR L H + +C C +SR D L H +
Sbjct: 20 YACPVESCDRRF-SRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 71
>2ebt_A Krueppel-like factor 5; C2H2-type zinc-finger, metal BIND,
transcription factor, kruppel-like factor, GC-box
promoter elements, structural genomics; NMR {Homo
sapiens}
Length = 100
Score = 30.7 bits (70), Expect = 0.034
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 37 YKCVI--CLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKR 82
YKC C +R L H+ R H +C C +SR D L LH KR
Sbjct: 46 YKCTWEGCDWRF-ARSDELTRHY-RKHTGAKPFQCGVCNRSFSRSDHLALHMKR 97
Score = 26.0 bits (58), Expect = 1.5
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 59 RNHKC--PYCESVYSRVDTLKLHAKRVH 84
R H C P C VY++ LK H R H
Sbjct: 14 RIHYCDYPGCTKVYTKSSHLKAH-LRTH 40
>1llm_C Chimera of ZIF23-GCN4; dimerization, DNA recognition, leucine
zipper, X-RAY crystallography, structure-based design,
zinc fingers; 1.50A {Mus musculus} SCOP: g.37.1.1
g.37.1.1 PDB: 1xf7_A
Length = 88
Score = 30.2 bits (69), Expect = 0.044
Identities = 8/55 (14%), Positives = 16/55 (29%), Gaps = 9/55 (16%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH-----KCPYCESVYSRVDTLKLHAK--RVH 84
+ C IC + +R + H E + S+ L+ +
Sbjct: 32 FACDICGRKF-ARSDERKRH-RDIQHILPILEDKVEELLSKNYHLENEVARLKKL 84
>2eps_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc
finger domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.37.1.1
Length = 54
Score = 28.7 bits (65), Expect = 0.081
Identities = 14/41 (34%), Positives = 15/41 (36%), Gaps = 7/41 (17%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYS 71
Y C C K SR HL H + H KC S S
Sbjct: 13 YICQSCGKGF-SRPDHLNGHIKQVHTSERPHKCQVWVSGPS 52
Score = 26.4 bits (59), Expect = 0.56
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 61 HKCPYCESVYSRVDTLKLHAKRVH 84
+ C C +SR D L H K+VH
Sbjct: 13 YICQSCGKGFSRPDHLNGHIKQVH 36
>1p7a_A BF3, BKLF, kruppel-like factor 3; classical zinc finger,
transcription factor, DNA binding protein; NMR {Mus
musculus} SCOP: g.37.1.1 PDB: 1u85_A 1u86_A
Length = 37
Score = 27.3 bits (61), Expect = 0.20
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 52 HLQTHF-SRNHKCPYCESVYSRVDTLKLHAKR 82
+ + +CP C+ +SR D L LH KR
Sbjct: 2 STRGSTGIKPFQCPDCDRSFSRSDHLALHRKR 33
>2wbs_A Krueppel-like factor 4; transcription-DNA complex, DNA-binding,
transcription, metal-binding, DNA, protein, nucleus,
activator; 1.70A {Mus musculus} PDB: 2wbu_A
Length = 89
Score = 28.3 bits (64), Expect = 0.24
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 37 YKCVI--CLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKR 82
Y C C +R L H+ R H +C C+ +SR D L LH KR
Sbjct: 36 YHCDWDGCGWKF-ARSDELTRHY-RKHTGHRPFQCQKCDRAFSRSDHLALHMKR 87
>1wir_A Protein arginine N-methyltransferase 3; C2H2 zinc finger domain,
PRMT3, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: g.37.1.5
Length = 121
Score = 28.4 bits (63), Expect = 0.32
Identities = 7/34 (20%), Positives = 14/34 (41%)
Query: 62 KCPYCESVYSRVDTLKLHAKRVHGLGISRYIHGL 95
C +C+ +++ + H K H I +H
Sbjct: 17 PCLFCDRLFASAEETFSHCKLEHQFNIDSMVHKH 50
>2vz5_A TAX1-binding protein 3; WNT signaling pathway, protein binding,
nucleus, cytoplasm, PDZ domain; 1.74A {Homo sapiens}
PDB: 3dj1_A 3diw_A 2l4s_A 2l4t_A 3gj9_A 2kg2_A 3dj3_A
Length = 139
Score = 28.1 bits (62), Expect = 0.40
Identities = 16/58 (27%), Positives = 21/58 (36%), Gaps = 2/58 (3%)
Query: 48 SRWHHLQTHFSRNHKCPYCESVYSRVDTLKLHAKRVHGLGISRYIHGLIPQLLFPTPH 105
HH + + Y +S+ RV+ KL LG S I G I Q P
Sbjct: 2 HHHHHHSSGVDLGTENLYFQSMVQRVEIHKLRQGENLILGFS--IGGGIDQDPSQNPF 57
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 27.1 bits (60), Expect = 0.50
Identities = 7/40 (17%), Positives = 14/40 (35%), Gaps = 10/40 (25%)
Query: 37 YKCVICLKSVRSR----------WHHLQTHFSRNHKCPYC 66
++C IC ++ ++ HF +C C
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYIC 55
>2ghf_A ZHX1, zinc fingers and homeoboxes protein 1; C2H2 zinc fingers,
4-stranded parallel/anti-parallel beta- sheet,
structural genomics; NMR {Homo sapiens} SCOP: g.37.1.1
g.37.1.1
Length = 102
Score = 27.0 bits (59), Expect = 0.77
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 52 HLQTHFSRNHKCPYCESVYSRVDTLKLHAKRVH 84
H + ++ C C + R D L H + H
Sbjct: 42 HPNVVLNSSYVCVECNFLTKRYDALSEHNLKYH 74
>1paa_A Yeast transcription factor ADR1; transcription regulation; NMR
{Saccharomyces cerevisiae} SCOP: g.37.1.1
Length = 30
Score = 25.6 bits (56), Expect = 0.94
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 62 KCPYCESVYSRVDTLKLHAKRVHG 85
C C ++R D L HA+++H
Sbjct: 4 ACGLCNRAFTRRDLLIRHAQKIHS 27
>2ctd_A Zinc finger protein 512; zinc binding, two ZF-C2H2 domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.37.1.1 g.37.1.1
Length = 96
Score = 26.8 bits (58), Expect = 1.1
Identities = 10/55 (18%), Positives = 17/55 (30%), Gaps = 4/55 (7%)
Query: 35 GMYKCVIC----LKSVRSRWHHLQTHFSRNHKCPYCESVYSRVDTLKLHAKRVHG 85
G C C K++ H++ C +C + +K H H
Sbjct: 33 GSVSCPTCQAVGRKTIEGLKKHMENCKQEMFTCHHCGKQLRSLAGMKYHVMANHN 87
>2dlq_A GLI-kruppel family member HKR3; ZF-C2H2 domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1
Length = 124
Score = 26.7 bits (60), Expect = 1.1
Identities = 13/54 (24%), Positives = 24/54 (44%), Gaps = 8/54 (14%)
Query: 37 YKCVICLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
+ C +C ++ R R L+ H +H KC C + + L+ H ++H
Sbjct: 67 FTCSVCQETFRRR-MELRLH-MVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118
>2j7j_A Transcription factor IIIA; zinc finger module, alternative
initiation, nuclear protein, phosphorylation,
hydrophobic core, zinc, RNA-binding; 1.65A {Xenopus
laevis} SCOP: g.37.1.1 g.37.1.1 g.37.1.1 PDB: 1un6_B
2hgh_A
Length = 85
Score = 26.0 bits (58), Expect = 1.3
Identities = 8/42 (19%), Positives = 9/42 (21%), Gaps = 5/42 (11%)
Query: 48 SRWHHLQTHF-----SRNHKCPYCESVYSRVDTLKLHAKRVH 84
S L+ H K C V H H
Sbjct: 44 SLPSRLKRHEKVHAGYPCKKDDSCSFVGKTWTLYLKHVAECH 85
>2jp9_A Wilms tumor 1; DNA binding, nucleic acid recognition, X-RAY; HET:
DNA; NMR {Homo sapiens} PDB: 2jpa_A* 2prt_A*
Length = 119
Score = 26.3 bits (59), Expect = 1.5
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 11/56 (19%)
Query: 37 YKCVI--CLKSVRSRWHHLQTHFSRNH------KCPYCESVYSRVDTLKLHAKRVH 84
Y+C C + SR L+ H R H +C C+ +SR D LK H R H
Sbjct: 37 YQCDFKDCERRF-SRSDQLKRH-QRRHTGVKPFQCKTCQRKFSRSDHLKTH-TRTH 89
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 27.0 bits (59), Expect = 1.6
Identities = 9/47 (19%), Positives = 16/47 (34%), Gaps = 13/47 (27%)
Query: 35 GMYKCVICLKSV---------RSRWHH--LQTHF--SRNHKCPYCES 68
+ C IC + R H + +F + +CP+C
Sbjct: 179 AVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 225
>2gqj_A Zinc finger protein KIAA1196; ZF-C2H2 like domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 98
Score = 26.1 bits (56), Expect = 1.6
Identities = 12/57 (21%), Positives = 15/57 (26%), Gaps = 6/57 (10%)
Query: 35 GMYKCVICLKSVRSRWHHLQTHFSRNHK------CPYCESVYSRVDTLKLHAKRVHG 85
G C C R L+ H K C +C + L H H
Sbjct: 23 GEAVCPTCNVVTRKTLVGLKKHMEVCQKLQDALKCQHCRKQFKSKAGLNYHTMAEHS 79
>3iyl_X VP3; non-enveloped virus, membrane penetration protein, autocleav
myristol group, icosahedral virus; HET: MYR; 3.30A
{Grass carp reovirus} PDB: 3k1q_C 3k1q_B
Length = 1214
Score = 27.1 bits (59), Expect = 1.7
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 58 SRNHKCPYCESVYSRVDTLKLHAKRVHGLGIS 89
++ C C + +S + L H + H S
Sbjct: 114 PSSYVCNVCNARFSTMSALSEHLRSDHRDDAS 145
>2epr_A POZ-, at HOOK-, and zinc finger-containing protein 1; C2H2, zinc
finger domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: g.37.1.1
Length = 48
Score = 25.3 bits (55), Expect = 1.7
Identities = 7/26 (26%), Positives = 10/26 (38%), Gaps = 1/26 (3%)
Query: 59 RNHKCPYCESVYSRVDTLKLHAKRVH 84
+ C C ++ V L H K H
Sbjct: 11 KQVACEICGKIFRDVYHLNRH-KLSH 35
>1wjp_A Zinc finger protein 295; ZF-C2H2 domain, zinc binding, nucleic
acid binding, KIAA1227 protein, structural genomics;
NMR {Homo sapiens} SCOP: g.37.1.1 g.37.1.1 g.37.1.1
Length = 107
Score = 26.0 bits (56), Expect = 1.8
Identities = 9/52 (17%), Positives = 14/52 (26%), Gaps = 3/52 (5%)
Query: 37 YKCVICLKSVRS---RWHHLQTHFSRNHKCPYCESVYSRVDTLKLHAKRVHG 85
C C S + H + C C + ++ H VH
Sbjct: 43 AVCPYCSLRFFSPELKQEHESKCEYKKLTCLECMRTFKSSFSIWRHQVEVHN 94
>2gli_A Protein (five-finger GLI); protein/DNA complex, transcription/DNA
complex; HET: DNA; 2.60A {Homo sapiens} SCOP: g.37.1.1
g.37.1.1 g.37.1.1 g.37.1.1 g.37.1.1
Length = 155
Score = 26.0 bits (58), Expect = 2.1
Identities = 18/58 (31%), Positives = 24/58 (41%), Gaps = 12/58 (20%)
Query: 37 YKCVI--CLKSVRSRWHHLQTHFSRNH------KCPY--CESVYSRVDTLKLHAKRVH 84
+KC C KS SR +L+TH R+H C + C +S H R H
Sbjct: 68 HKCTFEGCRKSY-SRLENLKTH-LRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTH 123
>3e0o_A Peptide methionine sulfoxide reductase MSRB; oxidoreductase;
2.60A {Bacillus subtilis} PDB: 1xm0_A 2kzn_A
Length = 144
Score = 25.5 bits (57), Expect = 3.2
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 12 SPIQPFITRNN-TDSIF---YPDPASPGMYKCVIC 42
+ +Q +T+NN T+ F Y D G+Y ++
Sbjct: 14 NRMQYEVTQNNGTEPPFQNEYWDHKEEGLYVDIVS 48
>3hcg_A Peptide methionine sulfoxide reductase MSRA/MSRB; PILB,
methionine sulfoxide reductase B, reduced form,
disulfide bond; 1.82A {Neisseria meningitidis serogroup
A} PDB: 3hch_A* 1l1d_A
Length = 146
Score = 25.5 bits (57), Expect = 3.3
Identities = 10/35 (28%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 12 SPIQPFITRNN-TDSIF---YPDPASPGMYKCVIC 42
+ Q +T+N+ T+ F Y PG+Y V+
Sbjct: 15 TEEQYQVTQNSATEYAFSHEYDHLFKPGIYVDVVS 49
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 24.8 bits (54), Expect = 3.3
Identities = 7/45 (15%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 32 ASPGMYKCVICLKSVRSR----------WHHLQTHFSRNHKCPYC 66
S + +C ICL++ + ++ +C C
Sbjct: 11 PSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALC 55
>2ent_A Krueppel-like factor 15; zinc binding, transcription factor,
adipogenesis, CLCNKA, chloride channel Ka, rhodopsin,
IRBP; NMR {Homo sapiens} SCOP: k.12.1.1
Length = 48
Score = 24.2 bits (53), Expect = 3.5
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 52 HLQTHFS-RNHKC--PYCESVYSRVDTLKLHAKRVH 84
+ + C P C +SR D L H +R H
Sbjct: 3 SGSSGTGEKPFACTWPGCGWRFSRSDELSRH-RRSH 37
>1ard_A Yeast transcription factor ADR1; transcription regulation; NMR
{Saccharomyces cerevisiae} SCOP: g.37.1.1 PDB: 1arf_A
1are_A
Length = 29
Score = 23.8 bits (52), Expect = 3.8
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 59 RNHKCPYCESVYSRVDTLKLHAKRVH 84
R+ C C ++R + LK H R H
Sbjct: 1 RSFVCEVCTRAFARQEHLKRH-YRSH 25
>2ftc_L MRPL20 protein; mitochondrial ribosome, large ribosomal subunit,
ribosomal R ribosome; 12.10A {Bos taurus}
Length = 118
Score = 25.2 bits (56), Expect = 3.8
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 80 AKRVHGLGISRYIHGL 95
A + HGL I L
Sbjct: 68 ASQEHGLKYPALIGNL 83
>2ghj_A 50S ribosomal protein L20; folding intermediate, ribosomal
protein extension, structural protein; 2.90A {Aquifex
aeolicus} PDB: 1gyz_A
Length = 118
Score = 25.2 bits (56), Expect = 3.8
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 80 AKRVHGLGISRYIHGL 95
A R +GL S +I+GL
Sbjct: 66 AVRAYGLNYSTFINGL 81
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 24.7 bits (54), Expect = 3.9
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 11/40 (27%)
Query: 38 KCVICLKSVRSR-----------WHHLQTHFSRNHKCPYC 66
+C ICL+ + + + +N CP C
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46
>1va1_A Transcription factor SP1; C2H2 type zinc finger, DNA-binding
protein; NMR {Homo sapiens}
Length = 37
Score = 23.9 bits (52), Expect = 4.1
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 59 RNHKCPY--CESVYSRVDTLKLHAKRVH 84
+ H C C VY + L+ H R H
Sbjct: 7 KQHICHIQGCGKVYGKTSHLRAH-LRWH 33
>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger;
NMR {Homo sapiens} SCOP: g.41.3.1
Length = 62
Score = 24.4 bits (53), Expect = 4.1
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 62 KCPYCESVYSRVDTLKL 78
KCP C S ++ ++ +L
Sbjct: 16 KCPVCSSTFTDLEANQL 32
>3r8s_Q 50S ribosomal protein L20; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_O 1p86_O 2awb_Q 2aw4_Q 2i2v_Q 2j28_Q 2i2t_Q*
2qao_Q* 2qba_Q* 2qbc_Q* 2qbe_Q 2qbg_Q 2qbi_Q* 2qbk_Q*
2qov_Q 2qox_Q 2qoz_Q* 2qp1_Q* 2rdo_Q 2vhm_Q ...
Length = 117
Score = 25.2 bits (56), Expect = 4.3
Identities = 7/16 (43%), Positives = 12/16 (75%)
Query: 80 AKRVHGLGISRYIHGL 95
A R +G+ S++I+GL
Sbjct: 67 AARQNGISYSKFINGL 82
>3v2d_U 50S ribosomal protein L20; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_O 2hgj_T 2hgq_T 2hgu_T 1vsa_O 2j03_U 2jl6_U
2jl8_U 2v47_U 2v49_U 2wdi_U 2wdj_U 2wdl_U 2wdn_U 2wh2_U
2wh4_U 2wrj_U 2wrl_U 2wro_U 2wrr_U ...
Length = 118
Score = 25.2 bits (56), Expect = 4.4
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 80 AKRVHGLGISRYIHGL 95
A R HGL S +IHGL
Sbjct: 68 ACRQHGLNYSTFIHGL 83
>2elo_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 37
Score = 23.7 bits (50), Expect = 4.8
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 59 RNHKCPYCESVYSRVDTLKLHAKRVH 84
R++ CP CE +S +K H K H
Sbjct: 8 RSYSCPVCEKSFSEDRLIKSHIKTNH 33
>1w1z_A Delta-aminolevulinic acid dehydratase; synthase, tetrapyrrole
biosynthesis, ALAD, porphyrin biosynt heme biosynthesis,
lyase; 2.6A {Prosthecochloris vibrioformis} SCOP:
c.1.10.3 PDB: 2c1h_A*
Length = 328
Score = 25.5 bits (57), Expect = 4.8
Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 7/37 (18%)
Query: 73 VDTLKLHAKRVHGLGISRYIHGLIPQLLFPTPHAKTS 109
+D K ++ LGI + I LF P KT
Sbjct: 63 IDRAVEECKELYDLGI-QGI------DLFGIPEQKTE 92
>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein
structure initiative, midwest center for structural
genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP:
e.59.1.1
Length = 309
Score = 25.2 bits (54), Expect = 5.8
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 10/30 (33%)
Query: 39 CVICLKSVRSRWHHLQTHFSRNHKCPYCES 68
C +C WH+++ KC +CE
Sbjct: 211 CSLC----ACEWHYVRI------KCSHCEE 230
>2zjr_N 50S ribosomal protein L20; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: a.144.2.1 PDB: 1nwx_O* 1nwy_O*
1sm1_O* 1xbp_O* 1yl3_1 2b66_U 2b9n_U 2b9p_U 2zjp_N*
2zjq_N 1nkw_O 3cf5_N* 3dll_N* 3pio_N* 3pip_N* 1pnu_O
1pny_O 1vor_R 1vou_R 1vow_R ...
Length = 118
Score = 24.8 bits (55), Expect = 5.9
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 80 AKRVHGLGISRYIHGL 95
R+HG+ S +I+GL
Sbjct: 68 GARLHGMNYSTFINGL 83
>3cxk_A Methionine-R-sulfoxide reductase; structural genomics, MSRB,
oxidoreductase, MIC labcard, PSI-2, protein structure
initiative; 1.70A {Burkholderia pseudomallei strain}
PDB: 3cez_A
Length = 164
Score = 24.9 bits (55), Expect = 6.9
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 12 SPIQPFITRNN-TDSIF---YPDPASPGMYKCVIC 42
+P+Q +T++ T+ F Y D G+Y CV+C
Sbjct: 45 TPMQYEVTQHAATEPPFTGEYTDTEDAGIYHCVVC 79
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 23.9 bits (52), Expect = 7.6
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 53 LQTHFSRNHKCPYCESVYSRVDTL 76
+ HF +++CP C V + L
Sbjct: 43 IVRHFYYSNRCPKCNIVVHQTQPL 66
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 23.6 bits (51), Expect = 8.3
Identities = 8/49 (16%), Positives = 12/49 (24%), Gaps = 17/49 (34%)
Query: 35 GMYKCVICLKSVRSRWHH-----------------LQTHFSRNHKCPYC 66
M C IC+ + L+ + CP C
Sbjct: 2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 50
>3og2_A Beta-galactosidase; TIM barrel domain, glycoside hydrolase, family
35, glycoprot hydrolase; HET: NAG BMA MAN GLC; 1.20A
{Trichoderma reesei} PDB: 3ogr_A* 3ogs_A* 3ogv_A*
Length = 1003
Score = 24.7 bits (53), Expect = 9.2
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 83 VHGLGISRYIHGLIPQLLFPTPH 105
V+G +Y+ + PQ FP P
Sbjct: 923 VNGFQYGKYVSNIGPQTEFPVPE 945
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
0.325 0.140 0.465
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: 1,758,946
Number of extensions: 86507
Number of successful extensions: 424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 407
Number of HSP's successfully gapped: 94
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.8 bits)