RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5184
(209 letters)
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant,
chromatin, X- RAY structure, crystallography, structural
protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1
Length = 149
Score = 135 bits (341), Expect = 4e-41
Identities = 81/135 (60%), Positives = 99/135 (73%), Gaps = 3/135 (2%)
Query: 2 ANGKEKISKTASGGKDLGSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGA 61
++G + GK G K+ A +TRS++A + FPV R+ R L++GNYSER+G GA
Sbjct: 11 SSGLVPRGSMSGRGKQGG---KARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 67
Query: 62 SVFLAATLEYLVAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGV 121
V+LAA LEYL AEILELAGNAA DNKK+RI PR+L LAI+NDEEL KLL VTIAQGGV
Sbjct: 68 PVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGV 127
Query: 122 LPHIEPVLLTKKTNE 136
LP+I+ VLL KKT
Sbjct: 128 LPNIQAVLLPKKTES 142
Score = 78.0 bits (191), Expect = 1e-18
Identities = 37/58 (63%), Positives = 45/58 (77%)
Query: 150 DNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGKNTSGSQ 207
DNKK+RI PR+L LAI+NDEEL KLL VTIAQGGVLP+I+ VLL KKT + + +
Sbjct: 92 DNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGK 149
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C
3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C
3azj_C 3azk_C 3azl_C 3azm_C ...
Length = 129
Score = 130 bits (328), Expect = 3e-39
Identities = 75/115 (65%), Positives = 94/115 (81%)
Query: 23 KSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILELAGN 82
K+ A ++RS++A + FPV R+ R L++GNY+ER+G GA V+LAA LEYL AEILELAGN
Sbjct: 10 KARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGN 69
Query: 83 AASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNEY 137
AA DNKK+RI PR+L LAI+NDEEL KLL VTIAQGGVLP+I+ VLL KKT+ +
Sbjct: 70 AARDNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSH 124
Score = 74.9 bits (183), Expect = 1e-17
Identities = 37/56 (66%), Positives = 43/56 (76%)
Query: 150 DNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGKNTSG 205
DNKK+RI PR+L LAI+NDEEL KLL VTIAQGGVLP+I+ VLL KKT+
Sbjct: 73 DNKKTRIIPRHLQLAIRNDEELNKLLGKVTIAQGGVLPNIQAVLLPKKTDSHKAKA 128
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone
variant, chromatin, X- RAY structure, crystallography,
structural protein/DNA complex; 2.90A {Homo sapiens}
SCOP: a.22.1.1 PDB: 1u35_C
Length = 120
Score = 127 bits (319), Expect = 4e-38
Identities = 69/113 (61%), Positives = 88/113 (77%)
Query: 23 KSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILELAGN 82
K + + +RSAKA ++FPV R+ RY+K+G+ RIG+GA V++AA LEYL AEILELA N
Sbjct: 7 KKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGAPVYMAAVLEYLTAEILELAVN 66
Query: 83 AASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTN 135
AA DNKK R+TPR+++LA+ NDEEL +LL GVTIA GGVLP+I P LL KK
Sbjct: 67 AARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRG 119
Score = 73.8 bits (180), Expect = 3e-17
Identities = 34/52 (65%), Positives = 41/52 (78%)
Query: 148 ASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTN 199
A DNKK R+TPR+++LA+ NDEEL +LL GVTIA GGVLP+I P LL KK
Sbjct: 68 ARDNKKGRVTPRHILLAVANDEELNQLLKGVTIASGGVLPNIHPELLAKKRG 119
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 125 bits (315), Expect = 2e-37
Identities = 75/118 (63%), Positives = 92/118 (77%)
Query: 19 GSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILE 78
G K ++RS +A + FPV RI R L++GNY+ER+G GA V+LAA +EYL AE+LE
Sbjct: 4 GKGGKVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGAPVYLAAVMEYLAAEVLE 63
Query: 79 LAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNE 136
LAGNAA DNKK+RI PR+L LAI+NDEEL KLL GVTIAQGGVLP+I+ VLL KKT +
Sbjct: 64 LAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEK 121
Score = 67.6 bits (164), Expect = 6e-15
Identities = 40/54 (74%), Positives = 45/54 (83%)
Query: 148 ASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGK 201
A DNKK+RI PR+L LAI+NDEEL KLL GVTIAQGGVLP+I+ VLL KKT K
Sbjct: 69 ARDNKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGVLPNIQAVLLPKKTEKK 122
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 131
Score = 123 bits (309), Expect = 2e-36
Identities = 78/125 (62%), Positives = 94/125 (75%), Gaps = 1/125 (0%)
Query: 13 SGGKDLGSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYL 72
SGGK G + A ++RSAKA + FPV R+ R L+RGNY++RIG GA V+L A LEYL
Sbjct: 1 SGGKG-GKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGAPVYLTAVLEYL 59
Query: 73 VAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTK 132
AEILELAGNAA DNKK+RI PR+L LAI+ND+EL KLL VTIAQGGVLP+I LL K
Sbjct: 60 AAEILELAGNAARDNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPK 119
Query: 133 KTNEY 137
K+ +
Sbjct: 120 KSAKA 124
Score = 70.3 bits (171), Expect = 7e-16
Identities = 39/59 (66%), Positives = 45/59 (76%), Gaps = 1/59 (1%)
Query: 150 DNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGKNTSGSQE 208
DNKK+RI PR+L LAI+ND+EL KLL VTIAQGGVLP+I LL KK+ K T SQE
Sbjct: 73 DNKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGVLPNIHQNLLPKKS-AKATKASQE 130
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA
interaction, nucleoprotein, supercoiled DNA, complex
(nucleosome core/DNA); 2.60A {Homo sapiens} SCOP:
a.22.1.1
Length = 128
Score = 119 bits (299), Expect = 5e-35
Identities = 62/125 (49%), Positives = 79/125 (63%), Gaps = 2/125 (1%)
Query: 13 SGGKDLGSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSER-IGIGASVFLAATLEY 71
+GGK K+ +RS +A + FPV RI R+LK S +G A+V+ AA LEY
Sbjct: 2 AGGKAGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEY 61
Query: 72 LVAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLT 131
L AE+LELAGNA+ D K RITPR+L LAI+ DEEL L+ TIA GGV+PHI L+
Sbjct: 62 LTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLIG 120
Query: 132 KKTNE 136
KK +
Sbjct: 121 KKGQQ 125
Score = 64.9 bits (157), Expect = 5e-14
Identities = 29/52 (55%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 150 DNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGK 201
D K RITPR+L LAI+ DEEL L+ TIA GGV+PHI L+ KK K
Sbjct: 76 DLKVKRITPRHLQLAIRGDEELDSLI-KATIAGGGVIPHIHKSLIGKKGQQK 126
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone
complex, intrinsically unfolded protein,
chaperone/structural protein complex; NMR {Saccharomyces
cerevisiae} SCOP: a.22.1.1 a.22.1.1
Length = 192
Score = 93.7 bits (231), Expect = 3e-24
Identities = 60/116 (51%), Positives = 76/116 (65%), Gaps = 2/116 (1%)
Query: 11 TASGGKDLGSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSER-IGIGASVFLAATL 69
S G +K S+ ++ SA+A + FPV RI+RYLKR +G A+++L A L
Sbjct: 78 AVSEGTRAVTKYSSSTQAQSSSARAGLQFPVGRIKRYLKRHATGRTRVGSKAAIYLTAVL 137
Query: 70 EYLVAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHI 125
EYL AE+LELAGNAA D K RITPR+L LAI+ D+EL L+ TIA GGVLPHI
Sbjct: 138 EYLTAEVLELAGNAAKDLKVKRITPRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192
Score = 61.0 bits (146), Expect = 7e-12
Identities = 25/40 (62%), Positives = 29/40 (72%), Gaps = 1/40 (2%)
Query: 150 DNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHI 189
D K RITPR+L LAI+ D+EL L+ TIA GGVLPHI
Sbjct: 154 DLKVKRITPRHLQLAIRGDDELDSLI-RATIASGGVLPHI 192
>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B,
tata-DNA, transcription initiation, NC2, negative
cofactor, structural genomics, PSI; 2.62A {Homo sapiens}
SCOP: a.22.1.3
Length = 98
Score = 72.2 bits (177), Expect = 5e-17
Identities = 15/80 (18%), Positives = 34/80 (42%)
Query: 30 TRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILELAGNAASDNKK 89
++ K N FP +RI++ ++ ++ V ++ LE + +L+ A
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAVPVIISRALELFLESLLKKACQVTQSRNA 62
Query: 90 SRITPRYLMLAIKNDEELAK 109
+T +L I+ + + A
Sbjct: 63 KTMTTSHLKQCIELEGDPAA 82
Score = 28.3 bits (63), Expect = 0.75
Identities = 7/49 (14%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 127 PVLLTKKTNEYYIQQ--EYDIFTASDNKKSRITPRYLMLAIKNDEELAK 173
PV++++ E +++ + +T +L I+ + + A
Sbjct: 35 PVIISRAL-ELFLESLLKKACQVTQSRNAKTMTTSHLKQCIELEGDPAA 82
>1n1j_B NF-YC; histone-like PAIR, DNA binding protein; 1.67A {Homo sapiens}
SCOP: a.22.1.3
Length = 97
Score = 47.6 bits (113), Expect = 8e-08
Identities = 17/89 (19%), Positives = 36/89 (40%), Gaps = 1/89 (1%)
Query: 19 GSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILE 78
GS ++ + + P++RI++ +K + I A V A + + E+
Sbjct: 1 GSHMEEIRNLTVKDFR-VQELPLARIKKIMKLDEDVKMISAEAPVLFAKAAQIFITELTL 59
Query: 79 LAGNAASDNKKSRITPRYLMLAIKNDEEL 107
A DNK+ + + +AI ++
Sbjct: 60 RAWIHTEDNKRRTLQRNDIAMAITKFDQF 88
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 49.8 bits (118), Expect = 2e-07
Identities = 30/137 (21%), Positives = 58/137 (42%), Gaps = 1/137 (0%)
Query: 6 EKISKTASGGKDLGSKLKSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFL 65
E++ K+ D + + +A R + + PV +I LK +I SV++
Sbjct: 72 ERVQKSFPHPIDKWAIADAQSAIEKRKRRNPLSLPVEKIHPLLKEVL-GYKIDHQVSVYI 130
Query: 66 AATLEYLVAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVLPHI 125
A LEY+ A+IL+L GN + + IT + + +A+ D+ L + +
Sbjct: 131 VAVLEYISADILKLVGNYVRNIRHYEITKQDIKVAMCADKVLMDMFHQDVEDINILSLTD 190
Query: 126 EPVLLTKKTNEYYIQQE 142
E + + Y + +
Sbjct: 191 EEPSTSGEQTYYDLVKA 207
>2byk_A Chrac-16; nucleosome sliding, histone fold, DNA-binding protein;
2.4A {Drosophila melanogaster} SCOP: a.22.1.3 PDB:
2bym_A
Length = 140
Score = 37.0 bits (85), Expect = 0.001
Identities = 12/86 (13%), Positives = 26/86 (30%), Gaps = 1/86 (1%)
Query: 23 KSNAARRTRSAKANIVFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYLVAEILELAGN 82
+ R A P+SR++ +K + I + E V + A
Sbjct: 4 PRSQPPVERPPTAETFLPLSRVRTIMKSSMDTGLITNEVLFLMTKCTELFVRHLAGAAYT 63
Query: 83 AASDNKKSR-ITPRYLMLAIKNDEEL 107
+ + +L + ++ L
Sbjct: 64 EEFGQRPGEALKYEHLSQVVNKNKNL 89
>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 = 35.4 bits (81), Expect = 0.013
Identities = 30/173 (17%), Positives = 52/173 (30%), Gaps = 77/173 (44%)
Query: 51 GNYSERIGIGASVFLAATLEYLVAEILELA---------GNAASDNKKSRITPR------ 95
G Y+ A LA+ +A+++ + G PR
Sbjct: 1765 GEYA------A---LAS-----LADVMSIESLVEVVFYRGMTMQV-----AVPRDELGRS 1805
Query: 96 -YLMLAIK--------NDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNEYYI--QQEYD 144
Y M+AI + E L ++ V G ++ E V N Y + QQ
Sbjct: 1806 NYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV---EIV------N-YNVENQQ--- 1852
Query: 145 IFTASDNKKSRITPRYLMLAIKNDEELAKLLC-----GVTIAQGGVLPHIEPV 192
A D + A+ + + +L + I + +E V
Sbjct: 1853 YVAAGDLR-----------AL---DTVTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 34.3 bits (78), Expect = 0.031
Identities = 29/168 (17%), Positives = 47/168 (27%), Gaps = 66/168 (39%)
Query: 63 VFLAATLEYLVAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLCGVTIAQGGVL 122
+ + Y+V +L G TP EL L G T G++
Sbjct: 241 IGVIQLAHYVVT--AKLLG----------FTP----------GELRSYLKGATGHSQGLV 278
Query: 123 PHIEPVLLTKKTNE-------------YYI----QQEYDI--FTASDNKKSRI----TPR 159
+ + + E ++I + Y S + S P
Sbjct: 279 TAV--AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS 336
Query: 160 YLMLAIKNDEELAKLLCGVTIAQGGVLPHIEPVLLTKKTNGKNTSGSQ 207
ML+I +T Q V ++ KTN +G Q
Sbjct: 337 P-MLSIS----------NLTQEQ--VQDYVN------KTNSHLPAGKQ 365
Score = 28.9 bits (64), Expect = 1.5
Identities = 15/90 (16%), Positives = 31/90 (34%), Gaps = 20/90 (22%)
Query: 114 VTIAQGGVLPHIEPVLLTKKTNEYYIQQEYDIFTASDNKKSRITPRYLMLAIKNDEE--- 170
+T++ G +E VLL + + Q + F + + D+E
Sbjct: 9 LTLSHG----SLEHVLLVPTASFFIASQLQEQFNKILPEPTE--------GFAADDEPTT 56
Query: 171 ----LAKLLCGVT-IAQGGVLPHIEPVLLT 195
+ K L V+ + + + + VL
Sbjct: 57 PAELVGKFLGYVSSLVEPSKVGQFDQVLNL 86
Score = 28.9 bits (64), Expect = 1.6
Identities = 19/77 (24%), Positives = 26/77 (33%), Gaps = 28/77 (36%)
Query: 15 GKDLGSKLKSNAARR--------------TRSAKAN--IVF-P--VSRIQRYLKRGNYSE 55
G DL L + + R T KA + F P S + G +
Sbjct: 465 GSDL-RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL------GVLTH 517
Query: 56 RI--GIGASVFLAATLE 70
R G G V +A TL+
Sbjct: 518 RNKDGTGVRVIVAGTLD 534
>1k6k_A ATP-dependent CLP protease ATP-binding subunit CLPA; chaperone,
ATPase, adaptor binding, X-RAY, structure, N-domain,
hydrolase; 1.80A {Escherichia coli} SCOP: a.174.1.1 PDB:
1r6c_X 1r6o_A* 1r6q_A* 1mg9_B* 1lzw_B* 1mbx_A* 1mbv_A
1mbu_A*
Length = 143
Score = 29.9 bits (67), Expect = 0.29
Identities = 21/112 (18%), Positives = 48/112 (42%), Gaps = 14/112 (12%)
Query: 73 VAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLL--CGVTIAQ------------ 118
+ L +A A +++ +T +L+LA+ ++ + L C V +
Sbjct: 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVDLVALRQELEAFIEQT 65
Query: 119 GGVLPHIEPVLLTKKTNEYYIQQEYDIFTASDNKKSRITPRYLMLAIKNDEE 170
VLP E T+ T + + +F + ++ +T +++AI +++E
Sbjct: 66 TPVLPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQE 117
>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein
biogenesis, GET PAT GET5 binding, protein transport;
1.98A {Chaetomium thermophilum}
Length = 336
Score = 30.8 bits (69), Expect = 0.31
Identities = 11/62 (17%), Positives = 21/62 (33%), Gaps = 10/62 (16%)
Query: 42 SRIQRYLKRGNYSERIGI---GASVFL-------AATLEYLVAEILELAGNAASDNKKSR 91
RY K+GN++ + I + L L L+ + AG + +
Sbjct: 40 LVAARYSKQGNWAAAVDILASVSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGK 99
Query: 92 IT 93
+
Sbjct: 100 LL 101
>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking,
tail-anchored protein, protein binding GET4; 1.99A
{Saccharomyces cerevisiae} PDB: 3lku_A
Length = 312
Score = 30.4 bits (68), Expect = 0.33
Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 10/62 (16%)
Query: 42 SRIQRYLKRGNYSERIGI---GASVFL-------AATLEYLVAEILELAGNAASDNKKSR 91
+ RY++ +Y I + GA FL L + + E+ +LA D +R
Sbjct: 38 TIANRYVRSKSYEHAIELISQGALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVAR 97
Query: 92 IT 93
+
Sbjct: 98 LV 99
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 28.8 bits (65), Expect = 1.3
Identities = 20/112 (17%), Positives = 46/112 (41%), Gaps = 14/112 (12%)
Query: 73 VAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLL--CGVTIAQ--GGVLPHIEPV 128
+ L +A A +++ +T +L+LA+ ++ + L C V + + IE
Sbjct: 6 LELSLNMAFARAREHRHEFMTVEHLLLALLSNPSAREALEACSVDLVALRQELEAFIEQT 65
Query: 129 L--LTKKTNEYYIQQ--------EYDIFTASDNKKSRITPRYLMLAIKNDEE 170
L E Q + +F + ++ +T +++AI +++E
Sbjct: 66 TPVLPASEEERDTQPTLSFQRVLQRAVFHVQSSGRNEVTGANVLVAIFSEQE 117
>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM,
S-adenosylmethionine, iron sulfur cluster,
oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB:
3rf9_A*
Length = 404
Score = 28.4 bits (64), Expect = 1.9
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 71 YLVAEILELAGN--AASDNKKSRITPRYLMLAIKND-----EELAKLLCGV 114
Y + L S+ + R+T Y+ML ND +LA+LL
Sbjct: 252 YNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKDT 302
Score = 27.6 bits (62), Expect = 3.6
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 12/48 (25%)
Query: 136 EYYIQQEYDIFTASDNKKSRITPRYLMLAIKND-----EELAKLLCGV 178
Y+++ S+ + R+T Y+ML ND +LA+LL
Sbjct: 262 RRYLEK-------SNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKDT 302
>2fo1_E LIN-12 protein; beta-barrel, protein-DNA complex, double helix,
ankyrin repeat, gene regulation/signalling protein/DNA
complex; 3.12A {Caenorhabditis elegans} SCOP: d.211.1.1
Length = 373
Score = 28.0 bits (63), Expect = 2.6
Identities = 17/122 (13%), Positives = 28/122 (22%), Gaps = 31/122 (25%)
Query: 73 VAEILELAGNAASDNKKSRITPRYLMLAIKNDEELAKLLC--GVTI-------------A 117
+ + ++ + L + + + V I A
Sbjct: 76 LGDFNHTNLQIPTEPEPESPIK--LHTEAAGSYAITEPITRESVNIIDPRHNRTVLHWIA 133
Query: 118 QGGVLPHIEPV-LLTKKTNEYYIQQEYDIFTASDNKKSR--ITPRYLMLAIKND-EELAK 173
E L + I D+ N TP LMLA+ L
Sbjct: 134 SNS---SAEKSEDLIVHEAKECIAAGADV-----NAMDCDENTP--LMLAVLARRRRLVA 183
Query: 174 LL 175
L
Sbjct: 184 YL 185
>3ctz_A XAA-Pro aminopeptidase 1; PITA-bread fold, alternative splicing,
cytoplasm, hydrolase, manganese, metal-binding,
metalloprotease, protease; HET: P6G; 1.60A {Homo
sapiens}
Length = 623
Score = 27.2 bits (61), Expect = 4.5
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 4/53 (7%)
Query: 120 GVLPHIEPVLLTKKTNEYYIQQEYDIFTASDNKKSRITPRYLMLAIKNDEELA 172
L E V ++ K + Y + + TP + A+KN E
Sbjct: 280 ADLSPREKVWVSDKAS-YAV---SETIPKDHRCCMPYTPICIAKAVKNSAESE 328
Score = 27.2 bits (61), Expect = 4.7
Identities = 17/96 (17%), Positives = 31/96 (32%), Gaps = 14/96 (14%)
Query: 20 SKLKSNAAR------RTRSAKANI-VFPVSRIQRYLKRGNYSERIGIGASVFLAATLEYL 72
++ + + + A+ I V P I LK + V+++ Y
Sbjct: 240 DRIDAPSVKEHLLLDLGLEAEYRIQVHPYKSILSELKA--LCADLSPREKVWVSDKASYA 297
Query: 73 VAEILELAGNAASDNKKSRITPRYLMLAIKNDEELA 108
V+E + TP + A+KN E
Sbjct: 298 VSETIP-----KDHRCCMPYTPICIAKAVKNSAESE 328
>1t90_A MMSDH, probable methylmalonate-semialdehyde dehydrogenase;
oxidoreductase, NAD; HET: NAD; 2.50A {Bacillus subtilis}
Length = 486
Score = 26.4 bits (59), Expect = 8.6
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 88 KKSRITPRYLMLAIKNDEELAKLLC---GVTI--AQGGVLPHIEPV 128
+++RI + L ++ EELA L+ G A G V IE V
Sbjct: 66 RRARILFNFQQLLSQHKEELAHLITIENGKNTKEALGEVGRGIENV 111
Score = 26.4 bits (59), Expect = 8.6
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 152 KKSRITPRYLMLAIKNDEELAKLLC---GVTI--AQGGVLPHIEPV 192
+++RI + L ++ EELA L+ G A G V IE V
Sbjct: 66 RRARILFNFQQLLSQHKEELAHLITIENGKNTKEALGEVGRGIENV 111
>4e4g_A Methylmalonate-semialdehyde dehydrogenase; structural genomics,
protein structure INI nysgrc, PSI-biology; 2.90A
{Sinorhizobium meliloti}
Length = 521
Score = 26.1 bits (58), Expect = 9.2
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 88 KKSRITPRYLMLAIKNDEELAKLLC---GVTI--AQGGVLPHIEPV 128
+++R+ +++ L N ELA++L G TI A+G ++ +E
Sbjct: 87 RRARVFMKFVQLLNDNMNELAEMLSREHGKTIDDAKGDIVRGLEVC 132
Score = 26.1 bits (58), Expect = 9.2
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 152 KKSRITPRYLMLAIKNDEELAKLLC---GVTI--AQGGVLPHIEPV 192
+++R+ +++ L N ELA++L G TI A+G ++ +E
Sbjct: 87 RRARVFMKFVQLLNDNMNELAEMLSREHGKTIDDAKGDIVRGLEVC 132
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
0.314 0.132 0.359
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,043,108
Number of extensions: 181612
Number of successful extensions: 307
Number of sequences better than 10.0: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 38
Length of query: 209
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 120
Effective length of database: 4,216,824
Effective search space: 506018880
Effective search space used: 506018880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (24.9 bits)