RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2450
(254 letters)
>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 = 48.9 bits (116), Expect = 7e-07
Identities = 60/322 (18%), Positives = 97/322 (30%), Gaps = 117/322 (36%)
Query: 23 QAASESPSQSTQGSADVCFSV------VGNNREEKTKKSLVAAYE---SDEEPEVQEETV 73
A S P + GS + V + + +E+ K L E +D+EP E V
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV 61
Query: 74 S---G------EEKQQIDWDKLACLICK---RQF-NSKDILKKHTQLSELHKSN------ 114
G E + +D++ L + DI H ++L + N
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI---HALAAKLLQENDTTLVK 118
Query: 115 ----LKMWYTCRNL-------DPNDAVHRAVQYRDRAK----------------E-RRL- 145
+K + T R + N A+ RAV A+ E R L
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVG-EGNAQLVAIFGGQGNTDDYFEELRDLY 177
Query: 146 -KYGEPEVPP-----ACKLKAKYSKVKEATVTF----------EEPTKK----------- 178
Y V A L +A F E P+
Sbjct: 178 QTY-HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI 236
Query: 179 ---GIGADNVGNKLLQ---------KMGWTQGQGLGKTNQGRTSIIEAEARISSAGLGTN 226
IG ++Q +G+T G+ L +G T + + +A
Sbjct: 237 SCPLIG-------VIQLAHYVVTAKLLGFTPGE-LRSYLKGATGHSQG---LVTAV---- 281
Query: 227 AIGMTPAPGETYKDCVKKMMRA 248
AI T + E++ V+K +
Sbjct: 282 AIAETDS-WESFFVSVRKAITV 302
>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 = 44.8 bits (105), Expect = 1e-05
Identities = 22/209 (10%), Positives = 60/209 (28%), Gaps = 64/209 (30%)
Query: 1 MEKWAKTLNHRKEISKVANNTEQAASESPSQSTQGSADVCFSVVG------NNR------ 48
++ + TL + S + + + P + + S++
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL-SIIAESIRDGLATWDNWKH 349
Query: 49 --EEKTKKSLVAAYESDEEPEVQE---------ETV--------------SGEEKQQIDW 83
+K + ++ E E ++ + + +
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV- 408
Query: 84 DKLA--CLICKRQFNSK--------DILKKHTQLSELHKSNLKMWYTCRNLDPNDAV--- 130
+KL L+ K+ S ++ K LH+S + + + D +D +
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 131 -----------H-RAVQYRDRAKERRLKY 147
H + +++ +R R+ +
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein,
helix-loop-helix, helix-turn-helix; NMR {Xenopus laevis}
SCOP: g.37.1.4 g.37.1.4
Length = 127
Score = 35.3 bits (80), Expect = 0.006
Identities = 14/103 (13%), Positives = 31/103 (30%), Gaps = 4/103 (3%)
Query: 66 PEVQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKSNLKMWYTCRNLD 125
P ++ S + + C +C S+ H Q S H + ++ + +
Sbjct: 13 PVGKDAVNSLIRENSHIFSDTQCKVCSAVLISESQKLAHYQ-SRKHANKVRRYMAINQGE 71
Query: 126 PNDAVHRAVQYRDRAKERRLKYGEPEVPPACKLKAKYSKVKEA 168
+ + + E + P C + V E+
Sbjct: 72 DSVPAKKF---KAAPAEISDGEDRSKCCPVCNMTFSSPVVAES 111
Score = 28.8 bits (63), Expect = 0.87
Identities = 14/73 (19%), Positives = 26/73 (35%), Gaps = 2/73 (2%)
Query: 45 GNNREEKTKKSLVAAYESDEEPEVQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKH 104
K ++ + D P + + E D K C +C F+S + + H
Sbjct: 54 SRKHANKVRRYMAINQGEDSVPAKKFKAAPAEISDGEDRSKC-CPVCNMTFSSPVVAESH 112
Query: 105 TQLSELHKSNLKM 117
+ H NL++
Sbjct: 113 YI-GKTHIKNLRL 124
>1paa_A Yeast transcription factor ADR1; transcription regulation; NMR
{Saccharomyces cerevisiae} SCOP: g.37.1.1
Length = 30
Score = 32.1 bits (73), Expect = 0.010
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 87 ACLICKRQFNSKDILKKHTQLSELHKSNL 115
AC +C R F +D+L +H Q ++H NL
Sbjct: 4 ACGLCNRAFTRRDLLIRHAQ--KIHSGNL 30
>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 = 34.5 bits (78), Expect = 0.012
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 142 ERRLK-YGEPEVPPACKLKA 160
+ LK Y + PA +KA
Sbjct: 26 QASLKLY-ADDSAPALAIKA 44
Score = 27.2 bits (59), Expect = 4.2
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 3/21 (14%)
Query: 49 EEKTKKSLVAA---YESDEEP 66
E++ K L A+ Y D P
Sbjct: 18 EKQALKKLQASLKLYADDSAP 38
Score = 26.8 bits (58), Expect = 4.6
Identities = 4/29 (13%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 11 RKEISKVANNTEQAASES-PSQSTQGSAD 38
++ + K+ + + A +S P+ + + + +
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
>1ej6_B Lambda1; icosahedral, non-equivalence, dsRNA virus, methylase,
methyltransferase, guanylyltransferase, zinc finger,
icosahedral virus; 3.60A {Reovirus SP} SCOP: i.7.1.1
PDB: 2cse_V
Length = 1275
Score = 34.4 bits (78), Expect = 0.031
Identities = 15/101 (14%), Positives = 26/101 (25%), Gaps = 2/101 (1%)
Query: 15 SKVANNTEQAASESPSQSTQGSADVCF--SVVGNNREEKTKKSLVAAYESDEEPEVQEET 72
+ + + A + S + +A+ V N K E+ +
Sbjct: 108 KQAKDTDKSKAQVTYSDTGINNANELSRSGNVDNEGGSNQKPMSTRIAEATSAIVSKHPA 167
Query: 73 VSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKS 113
G C +C S L H LH +
Sbjct: 168 RVGLPPTASSGHGYQCHVCSAVLFSPLDLDAHVASHGLHGN 208
>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 = 32.1 bits (72), Expect = 0.18
Identities = 27/151 (17%), Positives = 45/151 (29%), Gaps = 24/151 (15%)
Query: 15 SKVANNTEQAASESPSQSTQGS-ADVCFSVVGNN------REEKTKKSLVAAYESDEEPE 67
A+ +Q A SQS + D S NN R + VA
Sbjct: 41 QAAADANQQQAGIVSSQSGPNAVGDSAPSSSVNNDGDIITRPTSDSIAAVANATKPAAVV 100
Query: 68 VQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQ---------------LSELHK 112
+++ C +C +F++ L +H + ++ +
Sbjct: 101 SDPQSMKVTPIVNPS--SYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIR 158
Query: 113 SNLKMWYTCRNLDPNDAVHRAVQYRDRAKER 143
S L W R L P+ + Y D A
Sbjct: 159 SFLTAWDDIRILSPDVSSKSLSAYLDSAVAN 189
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.67
Identities = 14/63 (22%), Positives = 30/63 (47%), Gaps = 12/63 (19%)
Query: 48 REEKTKKSLVAAYESDEEPEVQEETVSGEEKQQI-DWDKLACLICKRQFNSKDILKKHTQ 106
REE+ +K L E D +V E+ + K+ + +W+ +RQ + K + +
Sbjct: 91 REEQ-RKRLQ---ELDAASKVMEQEWREKAKKDLEEWN-------QRQSEQVEKNKINNR 139
Query: 107 LSE 109
+++
Sbjct: 140 IAD 142
Score = 28.2 bits (62), Expect = 2.3
Identities = 12/66 (18%), Positives = 22/66 (33%), Gaps = 13/66 (19%)
Query: 58 AAYESDEEPEVQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKSNLKM 117
A +EPE + E+Q+ + SK + E K +L+
Sbjct: 76 QADRLTQEPESIRKW---REEQRKRLQE-------LDAASK---VMEQEWREKAKKDLEE 122
Query: 118 WYTCRN 123
W ++
Sbjct: 123 WNQRQS 128
>3ray_A PR domain-containing protein 11; structural genomics consortium,
SGC, histone methylation, Zn transcriptional regulation,
chromatin, transcription; 1.73A {Homo sapiens}
Length = 237
Score = 29.4 bits (65), Expect = 1.1
Identities = 5/40 (12%), Positives = 14/40 (35%)
Query: 74 SGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKS 113
+ +L ++ ++ + L+ LS L +
Sbjct: 197 TIHRNLARGEKRLQREKSEQVLDNPEDLRGPIHLSVLRQG 236
>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 = 1.2
Identities = 13/65 (20%), Positives = 18/65 (27%), Gaps = 15/65 (23%)
Query: 61 ESDEEPEVQEETVSGEEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKSNLKMWYT 120
S EP + CL C R F S + H H+ N+
Sbjct: 4 GSSGEPAHGRQHTP-------------CLFCDRLFASAEETFSH--CKLEHQFNIDSMVH 48
Query: 121 CRNLD 125
L+
Sbjct: 49 KHGLE 53
>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 = 26.5 bits (59), Expect = 2.6
Identities = 8/18 (44%), Positives = 9/18 (50%)
Query: 87 ACLICKRQFNSKDILKKH 104
C IC R F+ D L H
Sbjct: 51 QCRICMRNFSRSDHLTTH 68
>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved
in replication initiation, csgid, IDP90222; HET: DGI;
1.80A {Bacillus anthracis str}
Length = 368
Score = 28.0 bits (62), Expect = 2.8
Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 1/62 (1%)
Query: 176 TKKGIGADNVGNKLLQKMGWTQGQGLGKTNQGRTSIIEAEARISSAGLGTNAIGMTPAPG 235
KG G + + + G +G TN G+++ I + + N I + PG
Sbjct: 141 AAKGQGIAELADAIEYYRGGKDVYVVGCTNVGKSTFINRMIK-EFSDETENVITTSHFPG 199
Query: 236 ET 237
T
Sbjct: 200 TT 201
>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_B*
Length = 334
Score = 28.0 bits (63), Expect = 2.8
Identities = 12/37 (32%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 213 EAEARISSAGLGTN---AIGMTPAPGETYKDCVKKMM 246
E IS G AIG PG T+ D V +
Sbjct: 183 ELNNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQ 219
>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 = 25.6 bits (57), Expect = 3.8
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 3/34 (8%)
Query: 88 CLICKRQFNSKDILKKHTQLSELHKSNLKMWYTC 121
C +C R + +H ++ N+K+ Y C
Sbjct: 13 CKVCSRVYTHISNFCRH-YVTSHK-RNVKV-YPC 43
Score = 25.2 bits (56), Expect = 6.4
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 88 CLICKRQFNSKDILKKH 104
C C ++F KD + H
Sbjct: 43 CPFCFKEFTRKDNMTAH 59
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 27.4 bits (60), Expect = 4.0
Identities = 13/58 (22%), Positives = 19/58 (32%), Gaps = 19/58 (32%)
Query: 46 NNREEKTKKSLVAAYE----------SDEEPEVQEETVSGEEKQQID--------WDK 85
++ ++K KK LV AYE +E E +D WD
Sbjct: 154 SDTKQKGKKFLVIAYEPFENIAIELPPNEI-LFSENNDMDNNNDGVDELNKKCTFWDA 210
>1rim_A E6APC2 peptide; E6-binding domain, zinc finger, human
papillomavirus, HPV E6 protein, de novo protein; NMR
{Synthetic} SCOP: k.12.1.1
Length = 33
Score = 24.5 bits (53), Expect = 4.8
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 85 KLACLICKRQFNSKDILKKHTQLSELHKSNLK 116
K AC C ++F D L KH L EL +
Sbjct: 2 KFACPECPKRFMRSDHLSKHITLHELLGEERR 33
>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 = 25.7 bits (57), Expect = 6.8
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 87 ACLICKRQFNSKDILKKH 104
C +C R F+ D L H
Sbjct: 77 QCGVCNRSFSRSDHLALH 94
>1zr9_A Zinc finger protein 593; DNA binding, structural genomics, PSI,
protein structure initiative, center for eukaryotic
structural genomics, CESG; NMR {Homo sapiens} SCOP:
g.37.1.4
Length = 124
Score = 26.2 bits (57), Expect = 6.9
Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 88 CLICKRQFNSKDILKKHTQLSELHKSNLKMW 118
CL C R F LK H + S+ HK LK
Sbjct: 53 CLACARYFIDSTNLKTHFR-SKDHKKRLKQL 82
>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 = 25.6 bits (55), Expect = 8.0
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 76 EEKQQIDWDKLACLICKRQFNSKDILKKHTQLSELHKSN 114
E + + ++ KL CL C R F S + +H E+H N
Sbjct: 60 EHESKCEYKKLTCLECMRTFKSSFSIWRHQ--VEVHNQN 96
>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 = 25.1 bits (55), Expect = 8.8
Identities = 6/17 (35%), Positives = 6/17 (35%)
Query: 88 CLICKRQFNSKDILKKH 104
C IC K L H
Sbjct: 10 CEICGFTCRQKASLNWH 26
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
0.310 0.125 0.359
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,603,027
Number of extensions: 197752
Number of successful extensions: 392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 41
Length of query: 254
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 163
Effective length of database: 4,160,982
Effective search space: 678240066
Effective search space used: 678240066
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (25.9 bits)