RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8915
(220 letters)
>3dxt_A JMJC domain-containing histone demethylation PROT; JMJD2D, histone
demethylase, H3K9, jumonji domain-CONT protein 2D,
oxidoreductase; 1.80A {Homo sapiens} PDB: 3dxu_A*
2w2i_A*
Length = 354
Score = 90.8 bits (224), Expect = 8e-22
Identities = 42/230 (18%), Positives = 82/230 (35%), Gaps = 30/230 (13%)
Query: 3 MYFKSDNPNDPGSNPSPAEVESEFWNHVTNRMLHICVHSASIDTGSNGCGFPTAKNSTFA 62
+ + + + ++E ++W + + ++ A I
Sbjct: 102 RHLANSKKYQTPPHQNFEDLERKYWKNRIY---NSPIYGADISGSLFDEN---------- 148
Query: 63 KHPWNLKVLTNNSASILRSLNSLVDRISFGKI--------------DFGFEIIEFLLPIS 108
WNL L + + +++ ++ + D I +L
Sbjct: 149 TKQWNLGHLGTIQDLLEKECGVVIEGVNTPYLYFGMWKTTFAWHTEDMDLYSINYLHLGE 208
Query: 109 P--RYGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGVSLSRVVQE 166
P Y +P EH LFP R +L VA+I P++L E G+ +R+ QE
Sbjct: 209 PKTWYVVPPEHGQRLERLARELFPGSSR-GCGAFLRHKVALISPTVLKENGIPFNRITQE 267
Query: 167 PGQFILVFPSAFTSSIATGYLVAESVYFARPSWLSTCERVFKIYKTRQYC 216
G+F++ FP + + G+ AE++ FA P W+ + +
Sbjct: 268 AGEFMVTFPYGYHAGFNHGFNCAEAINFATPRWIDYGKMASQCSCGEARV 317
>2ox0_A JMJC domain-containing histone demethylation PROT; double-stranded
beta helix, demethylase, oxygenase, SGC, STR genomics,
structural genomics consortium, oxidoreductase; HET: MLY
ALY OGA; 1.95A {Homo sapiens} PDB: 2oq7_A* 2os2_A*
2ot7_A* 2oq6_A* 2vd7_A* 2ybk_A* 2ybp_A* 2ybs_A* 3njy_A*
3pdq_A* 3u4s_A* 2p5b_A* 2q8c_A* 2q8d_A* 2q8e_A* 2gp5_A*
2gp3_A* 2wwj_A* 2pxj_A* 2xml_A*
Length = 381
Score = 88.5 bits (218), Expect = 7e-21
Identities = 39/232 (16%), Positives = 77/232 (33%), Gaps = 30/232 (12%)
Query: 1 MAMYFKSDNPNDPGSNPSPAEVESEFWNHVTNRMLHICVHSASIDTGSNGCGFPTAKNST 60
+ + E+E ++W ++T + NG +
Sbjct: 118 EFRKIANSDKYCTPRYSEFEELERKYWKNLT-------FNPPIYGADVNGTLYE------ 164
Query: 61 FAKHPWNLKVLTNNSASILRSLNSLVDRISFGKI--------------DFGFEIIEFLLP 106
WN+ L + + ++ ++ + D I +L
Sbjct: 165 KHVDEWNIGRLRTILDLVEKESGITIEGVNTPYLYFGMWKTSFAWHTEDMDLYSINYLHF 224
Query: 107 ISP--RYGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGVSLSRVV 164
P Y +P EH FP +S + +L + +I P +L + G+ +V
Sbjct: 225 GEPKSWYSVPPEHGKRLERLAKGFFPGSAQSCE-AFLRHKMTLISPLMLKKYGIPFDKVT 283
Query: 165 QEPGQFILVFPSAFTSSIATGYLVAESVYFARPSWLSTCERVFKIYKTRQYC 216
QE G+F++ FP + + G+ AES FA W+ ++ +
Sbjct: 284 QEAGEFMITFPYGYHAGFNHGFNCAESTNFATRRWIEYGKQAVLCSCRKDMV 335
>3opt_A DNA damage-responsive transcriptional repressor R; RPH1, histone
demethylase, catalytic core, oxidoreductase; HET: DNA
AKG; 2.20A {Saccharomyces cerevisiae} PDB: 3opw_A*
Length = 373
Score = 82.8 bits (203), Expect = 7e-19
Identities = 43/226 (19%), Positives = 80/226 (35%), Gaps = 35/226 (15%)
Query: 1 MAMYFKSDNPNDPGSNPSPAEVESEFWNHVTNRMLHICVHSASIDTGSNGCGFPTAKNST 60
+ D + + +E +W + + G FP
Sbjct: 148 FRTEYTIDLSDFQ-NTERLKFLEEYYWKTLNFTTPMYGADT-------PGSIFP------ 193
Query: 61 FAKHPWNLKVLTNNSASILRSLNSLVDRISFGKI--------------DFGFEIIEFLLP 106
+ WN+ +IL + + V ++ + D I ++
Sbjct: 194 EGLNVWNV----AKLPNILDHMETKVPGVNDSYLYAGLWKASFSWHLEDQDLYSINYIHF 249
Query: 107 ISPR--YGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGVSLSRVV 164
+P+ Y IP E F M FP + + +L + + P LL E G+ + +V
Sbjct: 250 GAPKQWYSIPQEDRFKFYKFMQEQFPEEAK-NCPEFLRHKMFLASPKLLQENGIRCNEIV 308
Query: 165 QEPGQFILVFPSAFTSSIATGYLVAESVYFARPSWLSTCERVFKIY 210
G+F++ +P + + GY +AESV FA WL ++ K +
Sbjct: 309 HHEGEFMITYPYGYHAGFNYGYNLAESVNFALEEWLPIGKKAGKCH 354
>3avr_A Lysine-specific demethylase 6A; cupin superfamily,
TRI/dimethyllysine demethylase, oxidoredu structural
protein complex; HET: M3L OGA EDO; 1.80A {Homo sapiens}
PDB: 3avs_A*
Length = 531
Score = 71.4 bits (174), Expect = 1e-14
Identities = 21/239 (8%), Positives = 59/239 (24%), Gaps = 33/239 (13%)
Query: 1 MAMYFKSDNPNDPGSNPSPAEVESEFWNHVTNRMLHICV-HSASIDTGSNGCGFPTAKNS 59
A Y S + + + + T G + +
Sbjct: 165 YAQYQASSFQESLREENEKRSHHKDHSDSESTSSDNSGRRRKGPFKTIKFGTNIDLSDDK 224
Query: 60 TFAKHPWNLKVL-----TNNSASILRSLNSLVDRISFGKI--------------DFGFEI 100
+ L L ++ ++L + + ++ ++ + F
Sbjct: 225 KWKLQLHELTKLPAFVRVVSAGNLLSHVGHTILGMNTVQLYMKVPGSRTPGHQENNNFCS 284
Query: 101 IEFLLPISPR--YGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGV 158
+ + + +P+ + ++ + W + L E V
Sbjct: 285 VNINIGPGDCEWFVVPEGYWGVLNDFCEKNNLNFLM--GSWWPN-------LEDLYEANV 335
Query: 159 SLSRVVQEPGQFILVFPSAFTSSIATGYLVAESVYFARPSW--LSTCERVFKIYKTRQY 215
+ R +Q PG + + A G+ + + ++ K +
Sbjct: 336 PVYRFIQRPGDLVWINAGTVHWVQAIGWCNNIAWNVGPLTACQYKLAVERYEWNKLQSV 394
>4ask_A Lysine-specific demethylase 6B; oxidoreductase, KDM6B, GSK-J1,
inhibitor, lysine specific HI demethylase; HET: K0I;
1.86A {Homo sapiens} PDB: 2xue_A*
Length = 510
Score = 62.6 bits (151), Expect = 1e-11
Identities = 11/107 (10%), Positives = 28/107 (26%), Gaps = 11/107 (10%)
Query: 111 YGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGVSLSRVVQEPGQF 170
+ + + + + Y + W L + + R VQ PG
Sbjct: 272 FAVHEHYWETISAFCDRHGVDYL--TGSWWPI-------LDDLYASNIPVYRFVQRPGDL 322
Query: 171 ILVFPSAFTSSIATGYLVAESVYFARPSW--LSTCERVFKIYKTRQY 215
+ + ATG+ + + ++ + +
Sbjct: 323 VWINAGTVHWVQATGWCNNIAWNVGPLTAYQYQLALERYEWNEVKNV 369
>2xxz_A Lysine-specific demethylase 6B; oxidoreductase, histone
demethylation, oxygenase, chromatin modification; HET:
8XQ; 1.80A {Homo sapiens}
Length = 332
Score = 61.7 bits (149), Expect = 1e-11
Identities = 11/91 (12%), Positives = 24/91 (26%), Gaps = 9/91 (9%)
Query: 111 YGIPDEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPPSLLTEKGVSLSRVVQEPGQF 170
+ + + + + Y + W L + + R VQ PG
Sbjct: 238 FAVHEHYWETISAFCDRHGVDYL--TGSWWPI-------LDDLYASNIPVYRFVQRPGDL 288
Query: 171 ILVFPSAFTSSIATGYLVAESVYFARPSWLS 201
+ + ATG+ + +
Sbjct: 289 VWINAGTVHWVQATGWCNNIAWNVGPLTAYQ 319
>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 = 37.3 bits (86), Expect = 0.003
Identities = 37/217 (17%), Positives = 56/217 (25%), Gaps = 83/217 (38%)
Query: 41 SASIDTGSNGCGFPT------------------AKNSTF--AKH--------PWNLKVLT 72
S D+ N G P+ NS K NL V++
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL-VVS 380
Query: 73 NNSASILRSLNSLV-----------DRISFG--KIDFGFEIIEFLLPISPRYGIPDEHST 119
S L LN + RI F K+ F F LP++ + HS
Sbjct: 381 GPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS---NRF-LPVASPF-----HS- 429
Query: 120 AFRSTM---MSLFPHYCRSDKTIWLSSDVAM-----------------IPPSL---LTEK 156
+ L + + + D+ + I + +
Sbjct: 430 ---HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 157 GVSLSRVVQEPGQFILVF-PSAFTSSIATGYLVAESV 192
V Q IL F P S + G L +
Sbjct: 487 PVKWETTTQFKATHILDFGPGG-ASGL--GVLTHRNK 520
Score = 35.8 bits (82), Expect = 0.010
Identities = 45/285 (15%), Positives = 77/285 (27%), Gaps = 118/285 (41%)
Query: 5 FKSDNP---------NDPGSNPSPAEVESEFWNHVTNR-----------MLHIC------ 38
F P ++P + PAE+ +F +V++ +L++C
Sbjct: 37 FNKILPEPTEGFAADDEPTT---PAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 39 -------VHS--ASIDTGSNGCGFPTAKN--------STFAKHPWN-------LKVLTNN 74
+H+ A + N K AK P++ + +
Sbjct: 94 CYLEGNDIHALAAKLL-QENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 75 SASI----------------LRSL----NSLVDRISFGKIDFGFEIIEFLLPISPRYGIP 114
+A + LR L + LV D E L +
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG-------DLIKFSAETLSELI-----R 200
Query: 115 DEHSTAFRSTMMSLFPHYCRSDKTIWLSSDVAMIPP-SLLTEKGVS--LSRVVQ------ 165
+F + WL + + P L +S L V+Q
Sbjct: 201 TTLDAE------KVFTQGL--NILEWL-ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 166 -------EPGQFILVFPSAFTSS--IATGYLVAESVYFARPSWLS 201
PG+ A S + T +AE+ SW S
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAET-----DSWES 291
>1f89_A 32.5 kDa protein YLR351C; nitrilase, dimer, structural genomics,
four layer sandwich, PSI, protein structure initiative;
2.40A {Saccharomyces cerevisiae} SCOP: d.160.1.1
Length = 291
Score = 28.0 bits (63), Expect = 2.4
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 160 LSRVVQEPGQFILVFPSAFTSSIATG 185
L+ + G F +++PSAF TG
Sbjct: 177 LAMLSARKGAFAMIYPSAFN--TVTG 200
>2w1v_A Nitrilase-2, nitrilase homolog 2; hydrolase; 1.49A {Mus musculus}
Length = 276
Score = 27.9 bits (63), Expect = 2.7
Identities = 9/26 (34%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 160 LSRVVQEPGQFILVFPSAFTSSIATG 185
L+++ + G +LV+P AF + TG
Sbjct: 161 LAQIYAQRGCQLLVYPGAFN--LTTG 184
>1ems_A Nitfhit, NIT-fragIle histidine triad fusion protein; WORM,
nitrilase, nucleotide-binding protein, cancer; 2.80A
{Caenorhabditis elegans} SCOP: d.13.1.1 d.160.1.1
Length = 440
Score = 27.7 bits (62), Expect = 2.9
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 160 LSRVVQEPGQFILVFPSAFTSSIATG 185
LS ++ G +L FPSAFT + TG
Sbjct: 177 LSLWNRKRGAQLLSFPSAFTLN--TG 200
>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase,
pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis
thaliana}
Length = 502
Score = 26.6 bits (58), Expect = 8.1
Identities = 9/59 (15%), Positives = 18/59 (30%), Gaps = 7/59 (11%)
Query: 1 MAMYFKSDNPNDPGSNPSPAEVESEFWNHVTNRMLHICVHSASIDTGSNGCGFPTAKNS 59
+ N D P E+++ M+ + A ++ G T +S
Sbjct: 76 IMSSINK-NYVDMDEYPVTTELQNRCV-----NMIAHLFN-APLEEAETAVGVGTVGSS 127
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
0.321 0.134 0.415
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,288,565
Number of extensions: 177113
Number of successful extensions: 307
Number of sequences better than 10.0: 1
Number of HSP's gapped: 302
Number of HSP's successfully gapped: 12
Length of query: 220
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 130
Effective length of database: 4,188,903
Effective search space: 544557390
Effective search space used: 544557390
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.6 bits)