RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15482
(302 letters)
>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer,
retroviral protease domain, protein turnover; HET: DNA;
2.30A {Saccharomyces cerevisiae}
Length = 148
Score = 121 bits (305), Expect = 2e-34
Identities = 46/95 (48%), Positives = 65/95 (68%)
Query: 190 IKKNNIEANMEAAMEYNPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAERVN 249
+K+ I+ + A+EY PE F V MLYIN ++N YPVKAF+D+GAQTTIMS A++
Sbjct: 1 MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60
Query: 250 IMRLLDTRWAGIAKGVGVQKILGRIHMAIAELTNF 284
+ R++D R+ G A+GVG KI+GRIH A ++
Sbjct: 61 LSRMIDKRFIGEARGVGTGKIIGRIHQAQVKIETQ 95
>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural
genomics consortiu retropepsin-like domain, protein
turnover, hydrolase; 1.70A {Homo sapiens}
Length = 148
Score = 109 bits (272), Expect = 1e-29
Identities = 52/91 (57%), Positives = 66/91 (72%)
Query: 194 NIEANMEAAMEYNPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRL 253
+ + + P G V MLYINCKVNG+P+KAF+DSGAQ TIMS ACAER NIMRL
Sbjct: 3 SSHHHHHHSSGLVPRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRL 62
Query: 254 LDTRWAGIAKGVGVQKILGRIHMAIAELTNF 284
+D RWAG+AKGVG Q+I+GR+H+A ++
Sbjct: 63 VDRRWAGVAKGVGTQRIIGRVHLAQIQIEGD 93
>1v5o_A 1700011N24RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 102
Score = 87.7 bits (217), Expect = 5e-22
Identities = 33/95 (34%), Positives = 49/95 (51%), Gaps = 3/95 (3%)
Query: 1 MKVTVST---QHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKT 57
M +TV T F L V+ D EL NF+ CE++SG PA E I + LL D+ +
Sbjct: 8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67
Query: 58 LKTHGIQDGDLVLLKHLGSYHATPAAVIPNFDFSG 92
L ++G++DGD+V+L + P+ SG
Sbjct: 68 LGSYGLKDGDMVVLLQKDNVGLRTPGRTPSGPSSG 102
>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 = 60.4 bits (146), Expect = 3e-10
Identities = 57/342 (16%), Positives = 110/342 (32%), Gaps = 114/342 (33%)
Query: 22 LELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGI---------QDGD----- 67
++L ++ ++ G+ E+ +G T + G+ +
Sbjct: 244 IQLAHYVVTAKL-LGFTPGELRSYLKGA-------TGHSQGLVTAVAIAETDSWESFFVS 295
Query: 68 ----LVLLKHLG--SYHATPAAVIPNFDFSGIVVPSASSSS-SNGQSSNS--LSDDPATV 118
+ +L +G Y A P +P PS S N + S LS +
Sbjct: 296 VRKAITVLFFIGVRCYEAYPNTSLP---------PSILEDSLENNEGVPSPMLS-----I 341
Query: 119 RQLLLDNPKEI-ALLQQNNPRLAD------ALLN--------GSPED---FERILRQ--- 157
L +++ + + N L +L+N G P+ LR+
Sbjct: 342 SNL---TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 158 -----Q----YEEREKREQLR-LRMLNAHPFDT----EAQKLIAEEIKKNNIEANMEAAM 203
Q + ER+ + R L + A PF + A LI +++ KNN+
Sbjct: 399 PSGLDQSRIPFSERKLKFSNRFLPV--ASPFHSHLLVPASDLINKDLVKNNV-------- 448
Query: 204 EYNPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTR--WA-- 259
+N + V Y +G ++ S ++ + + V +
Sbjct: 449 SFNAKDIQIPV--Y--DTFDGSDLRVLSGSISERIVDCI-IRLPVKWETTTQFKATHILD 503
Query: 260 ---GIAKGVG--VQKIL-GR-IHMAIAELTNFN-----GDKK 289
G A G+G + G + + +A + N G K+
Sbjct: 504 FGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGFKQ 545
Score = 43.1 bits (101), Expect = 9e-05
Identities = 53/292 (18%), Positives = 84/292 (28%), Gaps = 96/292 (32%)
Query: 8 QHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEF---QGVLLQDNKKTLKTHGIQ 64
H + + + D+ + N + I F +G +++N + I
Sbjct: 1651 NHFKDTYGFSIL-DIVINNPV------------NLTIHFGGEKGKRIRENYSAMIFETIV 1697
Query: 65 DGDLVLLKHLGSYHATPAAVIPNFDFSGIVVPSAS-SSSSNGQSSNSLSDDPATVRQLLL 123
DG L K + + F S++ Q PA L L
Sbjct: 1698 DGKLKTEKIFKEINEHSTSYT----FRS---EKGLLSATQFTQ--------PA----LTL 1738
Query: 124 DNPKEIALLQQ-----NNPR-----------------LADALLNGSPED-----FER-IL 155
E A + P LAD + S E F R +
Sbjct: 1739 ---MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM---SIESLVEVVFYRGMT 1792
Query: 156 RQQYEEREKREQLRLRMLNAHP------FDTEAQKLIAEEIKKNN---IE-ANMEAAMEY 205
Q R++ + M+ +P F EA + + E + K +E N Y
Sbjct: 1793 MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN------Y 1846
Query: 206 NPETF-----GTVVMLYINCKV-NGYPVKAFIDSGAQTTIMSLACAERVNIM 251
N E G + L V N ++ ID +SL E V
Sbjct: 1847 NVENQQYVAAGDLRALDTVTNVLNFIKLQK-IDIIELQKSLSL---EEVEGH 1894
Score = 39.3 bits (91), Expect = 0.002
Identities = 42/229 (18%), Positives = 71/229 (31%), Gaps = 61/229 (26%)
Query: 71 LKHLGSYHAT---PAAVIPNF-----DFSGIVVPSASSSSSNGQSSNSLSDDPATVRQLL 122
L H GS P A F+ I+ P + + D+P T +L+
Sbjct: 11 LSH-GSLEHVLLVPTASFFIASQLQEQFNKIL-PEPTEGFA-------ADDEPTTPAELV 61
Query: 123 LDNPKEIA-LLQQNNPRLADALLNGSPEDFER-ILRQQ---------YEEREKREQLRLR 171
++ L++ + D +LN +FE L +E +
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 172 MLNAHPFDTEAQKLIAEEIKKNNIEANMEAAME-----Y-------NPET-FGTVVMLYI 218
++ + A+ + K + A A E N + F + LY
Sbjct: 122 LIKNY---ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLY- 177
Query: 219 NCKVNGYP--VKAFIDSGAQTTIMSLA----CAERV-----NIMRLLDT 256
Y V I A+ T+ L AE+V NI+ L+
Sbjct: 178 ----QTYHVLVGDLIKFSAE-TLSELIRTTLDAEKVFTQGLNILEWLEN 221
Score = 38.9 bits (90), Expect = 0.002
Identities = 32/233 (13%), Positives = 73/233 (31%), Gaps = 81/233 (34%)
Query: 117 TVRQLLLDNPKEIAL---------LQQNNPRLA-DALLNGSPEDFERILRQQYEEREKRE 166
++ ++++NP + + +++N + + +++G + E+I +E E
Sbjct: 1660 SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLK-TEKIF------KEINE 1712
Query: 167 QLRLRMLNAHP----FDTE-AQ-------KLIAEEIKKNNIEANMEAAM------EYN-- 206
T+ Q K E++K + +A EY
Sbjct: 1713 HSTSYTFR-SEKGLLSATQFTQPALTLMEKAAFEDLKSKGL-IPADATFAGHSLGEYAAL 1770
Query: 207 -------PETFGTVVMLYINCKVN--GYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTR 257
++V + V G ++ + A +N R
Sbjct: 1771 ASLADVMS--IESLVEV-----VFYRGMTMQVAVPRDELGRSNYGMIA--INPGR----- 1816
Query: 258 WAGIAKGVG---VQKILGRIHMA---IAELTNFN---------GDKKKALAAL 295
+A +Q ++ R+ + E+ N+N GD +AL +
Sbjct: 1817 ---VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGD-LRALDTV 1865
Score = 37.0 bits (85), Expect = 0.007
Identities = 50/292 (17%), Positives = 90/292 (30%), Gaps = 89/292 (30%)
Query: 14 FLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGDLVLLKH 73
FL VS +E F +V + EF+ L+ N D+
Sbjct: 64 FLGYVSSLVEPSKVGQFDQV-----LNLCLTEFENCYLEGN------------DI----- 101
Query: 74 LGSYHATPAAVIPNFDFSGIVVPSASSSSSNGQSSNSLSDDPATVRQLLLDNPKEIALLQ 133
HA A ++ D + N ++ ++ P D AL +
Sbjct: 102 ----HALAAKLLQEND---TTLVKTKELIKNYITARIMAKRP-------FDKKSNSALFR 147
Query: 134 ---QNNPRLADALLNG--SPEDF--ERILRQQYEE-REKREQL------RLRMLNAHPFD 179
+ N +L A+ G + +D+ E LR Y+ L L L D
Sbjct: 148 AVGEGNAQLV-AIFGGQGNTDDYFEE--LRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 180 TEAQKLIAEEIKKNNIEA---NMEAA-----MEYNPETFGTVVML-----YINCKVNGYP 226
A+K+ + + NI N + P + + ++ + K+ G+
Sbjct: 205 --AEKVFTQGL---NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFT 259
Query: 227 VKAFID--SGA----QTTIMSLACAE----------RVNIMRLLDTRWAGIA 262
GA Q + ++A AE + +L + G+
Sbjct: 260 PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL--FFIGVR 309
>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae}
Length = 106
Score = 47.4 bits (113), Expect = 2e-07
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+ +T E LD+ + K +I + + G +LQD+ KT+
Sbjct: 2 VSLTFKN-FKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDS-KTVSE 59
Query: 61 HGIQDGDLVLL 71
G++DGD V+
Sbjct: 60 CGLKDGDQVVF 70
>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling
proteins; 1.15A {Saccharomyces cerevisiae} SCOP:
d.15.1.1 PDB: 2bwe_S
Length = 77
Score = 45.3 bits (108), Expect = 7e-07
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M + + + + + ++V+ + + FK +G P + + G +L+D+ +T+++
Sbjct: 3 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDD-QTVES 61
Query: 61 HGIQDGD---LVL 70
+ IQDG LV
Sbjct: 62 YHIQDGHSVHLVK 74
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 45.1 bits (107), Expect = 1e-06
Identities = 13/71 (18%), Positives = 32/71 (45%), Gaps = 2/71 (2%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+ VTV ++ F ++V + + K + P + + + G+ L D+ + L
Sbjct: 16 IHVTVKFP--SKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNE 73
Query: 61 HGIQDGDLVLL 71
+GI + +++
Sbjct: 74 YGITEFSEIVV 84
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 45.0 bits (107), Expect = 1e-06
Identities = 16/73 (21%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M + + + + + ++V+ + + FK +G P + + G +L+D+ +T+++
Sbjct: 27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDD-QTVES 85
Query: 61 HGIQDGD---LVL 70
+ IQDG LV
Sbjct: 86 YHIQDGHSVHLVK 98
>1wx8_A Riken cDNA 4931431F19; ubiquitin-like domain, ubiquilin 1-like,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.15.1.1
Length = 96
Score = 44.7 bits (106), Expect = 2e-06
Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 6/74 (8%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++V+V T +C ++E+ + FK A + + F G +L+D L
Sbjct: 18 IRVSVKT--PQDCHEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQ-DILSQ 74
Query: 61 HGIQDGDLVLLKHL 74
GI DG V H+
Sbjct: 75 RGILDGSTV---HV 85
>1wx7_A Ubiquilin 3; ubiquitin-like domain, structural genomics, riken
structural genomics/proteomics initiative, RSGI, unknown
function; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 106
Score = 44.3 bits (105), Expect = 3e-06
Identities = 20/87 (22%), Positives = 39/87 (44%), Gaps = 7/87 (8%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+KVTV T + V++ ++ K + ++ + F G +L+D +L
Sbjct: 18 IKVTVKT--PKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDP-DSLAQ 74
Query: 61 HGIQDGD---LVL-LKHLGSYHATPAA 83
G++DG LV+ +H + PA+
Sbjct: 75 CGVRDGLTVHLVIKRQHRAMGNECPAS 101
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 44.3 bits (105), Expect = 3e-06
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
MKVTV T E V E+ ++ FK + ++ + F G +L+D TL
Sbjct: 26 MKVTVKT--PKEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQ-DTLSQ 82
Query: 61 HGIQDGD---LVL 70
HGI DG LV+
Sbjct: 83 HGIHDGLTVHLVI 95
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 44.4 bits (105), Expect = 3e-06
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 6/90 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+KVTV T E V E+ ++ FK + ++ + F G +L+D TL
Sbjct: 33 IKVTVKT--PKEKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQ-DTLIQ 89
Query: 61 HGIQDGD---LVLLKHLGSYHATPAAVIPN 87
HGI DG LV+ + S A
Sbjct: 90 HGIHDGLTVHLVIKRDPNSSSVDKYAAALE 119
>1yqb_A Ubiquilin 3; structural genomics consortium, ubiquitin,
ubiquitin-like domain, structural genomics, signaling
protein SGC; 2.00A {Homo sapiens} SCOP: d.15.1.1
Length = 100
Score = 43.9 bits (104), Expect = 4e-06
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 6/73 (8%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+KVTV T + V++ ++ K + ++ + F G +L+D +L
Sbjct: 23 IKVTVKT--PKDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDP-DSLAQ 79
Query: 61 HGIQDGD---LVL 70
G++DG LV+
Sbjct: 80 CGVRDGLTVHLVI 92
>3dbh_I NEDD8; cell cycle, activating enzyme, apoptosis, membrane, UBL
conjugation pathway, ATP-binding, ligase, nucleotide-
binding, polymorphism; 2.85A {Homo sapiens} SCOP:
k.45.1.1 PDB: 3dbr_I 3dbl_I
Length = 88
Score = 42.4 bits (100), Expect = 9e-06
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M + V T T + +D+ ++E K E + G P + + + G + D KT
Sbjct: 13 MLIKVKT-LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAAD 70
Query: 61 HGIQDGD---LVL 70
+ I G LVL
Sbjct: 71 YKILGGSVLHLVL 83
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 42.0 bits (99), Expect = 1e-05
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T +L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 4 MRIVVKT-LMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 61
Query: 61 HGIQDGD---LVL 70
+ I + L+L
Sbjct: 62 YNIHNHSALYLLL 74
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 41.1 bits (97), Expect = 2e-05
Identities = 18/73 (24%), Positives = 27/73 (36%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++TV L V ED + K + P + + F+G L D K L
Sbjct: 8 MQLTVKA-LQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADG-KRLSD 65
Query: 61 HGIQDGD---LVL 70
+ I LV+
Sbjct: 66 YSIGPNSKLNLVV 78
>1wh3_A 59 kDa 2'-5'-oligoadenylate synthetase like protein; P59 OASL,
ubiquitin family, structural genomics; NMR {Homo
sapiens} SCOP: d.15.1.1
Length = 87
Score = 41.2 bits (97), Expect = 2e-05
Identities = 24/76 (31%), Positives = 36/76 (47%), Gaps = 3/76 (3%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++V V + ++ + + K E Q G P + +EFQG +LQD L
Sbjct: 8 IQVFVKN-PDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDW-LGLGI 65
Query: 61 HGIQDGD-LVLLKHLG 75
+GIQD D L+L K G
Sbjct: 66 YGIQDSDTLILSKKKG 81
>2kd0_A LRR repeats and ubiquitin-like domain-containing protein
AT2G30105; ubiquitin-like protein, NESG, leucine-rich
repeat, structural genomics; NMR {Arabidopsis thaliana}
Length = 85
Score = 41.1 bits (97), Expect = 3e-05
Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+K+TV + L VS D +++ K+ + + + F+G +L + TLK
Sbjct: 13 IKLTVK--FGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVET-STLKQ 69
Query: 61 HGIQDGDLVLL 71
+ G ++L
Sbjct: 70 SDVGSGAKLML 80
>3k9o_B Ubiquitin, UBB+1; E2-25K, complex structure, ATP-binding,
isopeptide BO ligase, nucleotide-binding, UBL
conjugation pathway; 1.80A {Homo sapiens} PDB: 2k25_A
2kx0_A
Length = 96
Score = 40.9 bits (96), Expect = 3e-05
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 2 MQIFVKT-LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 59
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 60 YNIQKESTLHLVL 72
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 40.8 bits (96), Expect = 3e-05
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+++ + T T + F +++ +EN KA + + G P + + F G L+D +TL
Sbjct: 10 LQLFIKT-LTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 67
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 68 YNIQKESTLHLVL 80
>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific
protease activity, hydrolase, ubiquitin B structural
genomics consortium, SGC; 2.70A {Homo sapiens}
Length = 85
Score = 40.4 bits (95), Expect = 4e-05
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 4 MQIFVKT-LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 61
Query: 61 HGIQDGD---LVL 70
+ IQ L+L
Sbjct: 62 YNIQKWSTLFLLL 74
>1we6_A Splicing factor, putative; structural genomics, ubiquitin-like
domain, riken structural genomics/proteomics initiative,
RSGI; NMR {Arabidopsis thaliana} SCOP: d.15.1.1
Length = 111
Score = 41.3 bits (97), Expect = 4e-05
Identities = 12/72 (16%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 1 MKVTVSTQHTNECFLLDV-SEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLK 59
++V+ ++ + + V S + + K + PA++ + + L+DN +L
Sbjct: 30 IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDN-MSLA 88
Query: 60 THGIQDGDLVLL 71
+ + G+++ L
Sbjct: 89 HYNVGAGEILTL 100
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 40.3 bits (95), Expect = 4e-05
Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 3/72 (4%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQG-VLLQDNKKTLK 59
MK V F L+V L K E P + + G V+L+++ T++
Sbjct: 11 MKFLVENL-NGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDL-TVE 68
Query: 60 THGIQDGDLVLL 71
I + L
Sbjct: 69 QCQIVPTSDIQL 80
>1ndd_A NEDD8, protein (ubiquitin-like protein NEDD8); proteolysis,
signaling protei; 1.60A {Homo sapiens} SCOP: d.15.1.1
PDB: 1r4m_I 1r4n_I* 1xt9_B 2ko3_A 3gzn_I* 2bkr_B
2nvu_I* 3dqv_A 1bt0_A
Length = 76
Score = 39.5 bits (93), Expect = 8e-05
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M + V T T + +D+ ++E K E + G P + + + G + D KT
Sbjct: 1 MLIKVKT-LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAAD 58
Query: 61 HGIQDGD---LVL 70
+ I G LVL
Sbjct: 59 YKILGGSVLHLVL 71
>3a9j_A Ubiquitin; protein complex, cytoplasm, isopeptide bond,
metal-binding, zinc; 1.18A {Mus musculus} PDB: 3a1q_B
2znv_B 3a9k_A 3h7p_A 3jsv_A 3dvg_Y 3dvn_Y 3nob_A
2o6v_D* 3jw0_X 3jvz_X 3nhe_B* 1aar_A 1d3z_A 1f9j_A
1fxt_B 1g6j_A 1nbf_C 1cmx_B 1q5w_B ...
Length = 76
Score = 39.2 bits (92), Expect = 8e-05
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKT-LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 59 YNIQRESTLHLVL 71
>1wy8_A NP95-like ring finger protein, isoform A; ubiquitin-like domain,
NP95/ICBP90-like ring finger (NIRF), ubiquitin ligase,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.15.1.1
Length = 89
Score = 39.7 bits (93), Expect = 8e-05
Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 1 MKVTVSTQHTNECF-LLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLK 59
M + V T ++ + DVS +E + + ++G L++ TL
Sbjct: 8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENG-YTLF 66
Query: 60 THGIQDGD---LVL 70
+ + D L++
Sbjct: 67 DYDVGLNDIIQLLV 80
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 39.8 bits (93), Expect = 8e-05
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKT-LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 59 YNIQKESTLHLVL 71
>4fbj_B NEDD8; effector-HOST target complex, glutamine deamidase,
deamidati bacterial effector, cell cycle-protein
binding complex; 1.60A {Homo sapiens} PDB: 4f8c_B
Length = 88
Score = 39.6 bits (93), Expect = 9e-05
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M + V T T + +D+ ++E K E + G P + + + G + D KT
Sbjct: 1 MLIKVKT-LTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAAD 58
Query: 61 HGIQDGD---LVL 70
+ I G LVL
Sbjct: 59 YKILGGSVLHLVL 71
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 39.8 bits (93), Expect = 1e-04
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 36 MQIFVKT-LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 93
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 94 YNIQKESTLHLVL 106
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 40.2 bits (94), Expect = 1e-04
Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++ T T + L+V ++N K+ + + G P + + + G L+D +TL
Sbjct: 10 FQIFAKT-LTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDG-RTLSD 67
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 68 YNIQRESTLHLVL 80
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 38.1 bits (89), Expect = 2e-04
Identities = 11/73 (15%), Positives = 24/73 (32%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+ + V + +V + + K G + F+G L+D L
Sbjct: 5 LSILVRN-NKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ-LPLGE 62
Query: 61 HGIQDGD---LVL 70
+G++ + L
Sbjct: 63 YGLKPLSTVFMNL 75
>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome,
ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A
2zeq_A 2knb_A 1iyf_A
Length = 76
Score = 37.7 bits (88), Expect = 3e-04
Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M V V +++ F ++V D + K Q G PA ++ + F G L ++ T++
Sbjct: 1 MIVFVRF-NSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNH-LTVQN 58
Query: 61 HGIQDGD---LVL 70
++ +V
Sbjct: 59 CDLEQQSIVHIVQ 71
>1wxv_A BAG-family molecular chaperone regulator-1; structural genomics,
apoptosis, riken structural genomics/proteomics
initiative, RSGI, NPPSFA; NMR {Homo sapiens} SCOP:
d.15.1.1
Length = 92
Score = 38.2 bits (88), Expect = 4e-04
Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 1 MKVTV---STQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKT 57
+ VTV + +H S + +++ E G P + F+G L++ +
Sbjct: 8 LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 67
Query: 58 LKTHGIQDGDLVLLKHLGSYHATPAA 83
L GIQDG V+L +G ++ P++
Sbjct: 68 LSALGIQDGCRVML--IGKKNSGPSS 91
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 39.0 bits (91), Expect = 4e-04
Identities = 7/73 (9%), Positives = 11/73 (15%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M T + + V E + E + K
Sbjct: 1 MSDTEAP-VEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEV-KDASL 58
Query: 61 HGIQDGD---LVL 70
V
Sbjct: 59 VDYVQVRQPIFVA 71
>4dwf_A HLA-B-associated transcript 3; ubiquitin-like domain, BAT3
protein, PF00240, structural GEN joint center for
structural genomics, JCSG; 1.80A {Homo sapiens} PDB:
1wx9_A
Length = 90
Score = 37.6 bits (88), Expect = 5e-04
Identities = 16/83 (19%), Positives = 36/83 (43%), Gaps = 2/83 (2%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++V V T ++ V + ++ FK P+ + + +QG +LQD+ K L+
Sbjct: 6 LEVLVKT-LDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD-KKLQE 63
Query: 61 HGIQDGDLVLLKHLGSYHATPAA 83
+ + + L++ P+
Sbjct: 64 YNVGGKVIHLVERAPPQTHLPSG 86
>1we7_A SF3A1 protein; structural genomics, ubiquitin-like domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: d.15.1.1 PDB:
1zkh_A
Length = 115
Score = 37.9 bits (88), Expect = 6e-04
Identities = 10/64 (15%), Positives = 28/64 (43%), Gaps = 4/64 (6%)
Query: 10 TNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD-- 67
+ + + ++ K +G PA + ++++G+ ++D+ +L + + G
Sbjct: 44 NGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDS-NSLAYYNMASGAVI 102
Query: 68 -LVL 70
L L
Sbjct: 103 HLAL 106
>1v86_A DNA segment, CHR 7, wayne state university 128, expressed;
ubiquitin fold, structural genomics, D7WSU128E protein;
HET: DNA; NMR {Mus musculus} SCOP: d.15.1.1
Length = 95
Score = 37.5 bits (87), Expect = 7e-04
Identities = 15/81 (18%), Positives = 33/81 (40%), Gaps = 4/81 (4%)
Query: 3 VTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHG 62
V + + V D K +G P + ++G++ +D KTL+
Sbjct: 18 VDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGLVPED--KTLREIK 75
Query: 63 IQDGDLVLLKHLGSYHATPAA 83
+ G +++ +GS + P++
Sbjct: 76 VTSGAKIMV--VGSTISGPSS 94
>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 = 40.2 bits (93), Expect = 7e-04
Identities = 49/331 (14%), Positives = 98/331 (29%), Gaps = 99/331 (29%)
Query: 7 TQHTNECFL-LDVS-EDLELENFKAFCEVQSGYPAHEIAIEFQG-------VLLQDNKKT 57
+ N+ F +VS L+ +A E++ PA + I G + D
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELR---PAKNVLI--DGVLGSGKTWVALD---V 170
Query: 58 LKTHGIQD--GDLVLLKHLGSYHATPAAVIPNF-DFSGIVVPSASSSSSNGQS----SNS 110
++ +Q + +L + + +P V+ + P+ +S S + + +S
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCN-SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 111 LSD-------DPATVRQLL-LDN---PKEIA--------LLQQNNPRLADALLNGSPEDF 151
+ LL L N K LL ++ D L +
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 152 ERILRQQ-YEERE-----------KREQLRLRMLNAHPFDTEAQKLIAEEIK-------- 191
E + + L +L +P +IAE I+
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR---RLSIIAESIRDGLATWDN 346
Query: 192 -----KNNIEANMEAAMEY-NPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACA 245
+ + +E+++ P + ++ V F S
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRK---MFDRLSV-------FPPS------------ 384
Query: 246 ERVNI-MRLLDTRWAGIAKGVGVQKILGRIH 275
+I LL W + K V ++ ++H
Sbjct: 385 --AHIPTILLSLIWFDVIKSD-VMVVVNKLH 412
>2hj8_A Interferon-induced 17 kDa protein; HR2873B, human ISG15,
structure, northeast structural genomics consortium,
protein structure initiative, NESG; NMR {Homo sapiens}
Length = 88
Score = 37.0 bits (86), Expect = 9e-04
Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
+ + V +V + + K G + F+G L+D L
Sbjct: 5 LSILVRNN-KGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ-LPLGE 62
Query: 61 HGIQDGD---LVL 70
+G++ + L
Sbjct: 63 YGLKPLSTVFMNL 75
>3b08_A Polyubiquitin-C, ubiquitin; protein complex, signaling
protein-metal binding protein COM; HET: TRE; 1.70A
{Homo sapiens} PDB: 2w9n_A* 3b0a_A* 3axc_A 2zvn_A
2zvo_A 2y5b_B
Length = 152
Score = 37.3 bits (86), Expect = 0.002
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKTL-TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQD 65
+ IQ
Sbjct: 59 YNIQK 63
Score = 31.1 bits (70), Expect = 0.19
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 7 TQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDG 66
T + L+V +EN KA + + G P + + F G L+D +TL + IQ
Sbjct: 82 KTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDYNIQKE 140
Query: 67 D---LVL 70
LVL
Sbjct: 141 STLHLVL 147
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 35.9 bits (83), Expect = 0.002
Identities = 13/73 (17%), Positives = 26/73 (35%), Gaps = 7/73 (9%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V Q + +V+ + KA G + + G L+D TL
Sbjct: 20 MQLFVRAQELHT---FEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDE-ATLGQ 75
Query: 61 HGIQDG---DLVL 70
G++ ++
Sbjct: 76 CGVEALTTLEVAG 88
>3u5e_m 60S ribosomal protein L40; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_m 4a18_K 4a19_K
4a1b_K 4a1d_K 4adx_5 3izc_p 3izs_p 3iz5_p 3izr_p
Length = 128
Score = 36.6 bits (84), Expect = 0.002
Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V ++N K+ + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKT-LTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQDGD 67
+ IQ
Sbjct: 59 YNIQKES 65
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo
sapiens}
Length = 172
Score = 37.0 bits (85), Expect = 0.002
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V +EN KA + + G P + + F G L+D +TL
Sbjct: 21 MQIFVKTL-TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 78
Query: 61 HGIQD 65
+ IQ
Sbjct: 79 YNIQK 83
Score = 31.9 bits (72), Expect = 0.14
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 25 ENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD---LVL 70
EN KA + + G P + + F G L+D +TL + IQ LVL
Sbjct: 120 ENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDYNIQKESTLHLVL 167
>1wgg_A Ubiquitin carboxyl-terminal hydrolase 14; ubiquitin specific
protease 14, USP14, ubiquitin-like fold, structural
genomics; NMR {Mus musculus} SCOP: d.15.1.1
Length = 96
Score = 35.6 bits (82), Expect = 0.003
Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 5/83 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
VTV + ++++ D FKA +G + +G L+D+
Sbjct: 8 YSVTVKWG-KEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD--DWGN 64
Query: 61 HGIQDGDLVLLKHLGSYHATPAA 83
+++G VL+ +GS A P
Sbjct: 65 IKMKNGMTVLM--MGSADALPEE 85
>1ttn_A DC-UBP, dendritic cell-derived ubiquitin-like protein;
ubiquitin-like domain, solution structure, signaling
protein; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 106
Score = 35.9 bits (83), Expect = 0.003
Identities = 11/73 (15%), Positives = 21/73 (28%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++ + T + L V + + K G F G L D K +
Sbjct: 24 CQLRLRL-STGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTD-KMKFEE 81
Query: 61 HGIQDGD---LVL 70
I +++
Sbjct: 82 LKIPKDYVVQVIV 94
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold,
GP78-binding, chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 35.0 bits (81), Expect = 0.003
Identities = 14/65 (21%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
++V V T ++ V + ++ FK P+ + + +QG +LQD+ K L+
Sbjct: 18 LEVLVKT-LDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD-KKLQE 75
Query: 61 HGIQD 65
+ +
Sbjct: 76 YNVGG 80
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.005
Identities = 10/58 (17%), Positives = 23/58 (39%), Gaps = 5/58 (8%)
Query: 149 EDF-ERILRQQYEEREKREQLRLRMLNAHPFDTEAQKLIAEEIKKNNIEANMEAAMEY 205
E+ +R+ + ++ R + A E + +E+++K N N A +
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREK---AKKDLEEWNQRQSEQVEK-NKINNRIADKAF 145
Score = 27.8 bits (61), Expect = 3.8
Identities = 11/57 (19%), Positives = 26/57 (45%)
Query: 111 LSDDPATVRQLLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQ 167
L+ +P ++R+ + K + L + + + +D E ++Q E+ EK +
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKI 136
>2faz_A Ubiquitin-like containing PHD and ring finger DOM protein 1; cell
cycle, DNA damage, DNA repair, DNA-binding, ligase, Met
binding, nuclear protein; 2.00A {Homo sapiens} SCOP:
d.15.1.1
Length = 78
Score = 33.9 bits (78), Expect = 0.008
Identities = 11/74 (14%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 1 MKVTVSTQHTNEC-FLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLK 59
M + V T + + +S ++E + + + ++G ++D TL
Sbjct: 3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDG-HTLF 61
Query: 60 THGIQDGD---LVL 70
+ ++ D L++
Sbjct: 62 DYEVRLNDTIQLLV 75
>1wia_A Hypothetical ubiquitin-like protein (riken cDNA 2010008E23);
'structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 95
Score = 33.1 bits (75), Expect = 0.019
Identities = 20/81 (24%), Positives = 31/81 (38%), Gaps = 13/81 (16%)
Query: 25 ENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGDLVLLKHLGSYHATPAAV 84
+ ++ + +QG LLQD +TL + I + ++ H AAV
Sbjct: 28 DTVGTLKSKYFPGQESQMKLIYQGRLLQDPARTLSSLNITNNCVI---HC-HRSPPGAAV 83
Query: 85 IPNFDFSGIVVPSASSSSSNG 105
PSASS S+G
Sbjct: 84 SG---------PSASSGPSSG 95
>3l0w_B Monoubiquitinated proliferating cell nuclear antigen,
proliferating cell nuclear antigen; replication, DNA
damage, DNA repair; 2.80A {Saccharomyces cerevisiae}
PDB: 3l10_B
Length = 169
Score = 33.4 bits (76), Expect = 0.040
Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 5/73 (6%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKT 60
M++ V T T + L+V ++N K+ + + G P + + F G L+D +TL
Sbjct: 1 MQIFVKTL-TGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSD 58
Query: 61 HGIQDGD---LVL 70
+ IQ LVL
Sbjct: 59 YNIQKESTLHLVL 71
>3ai5_A Yeast enhanced green fluorescent protein, ubiquit; ubiquitin,
fusion protein, fluore protein, transcription; HET: CR2;
1.40A {Aequorea victoria} PDB: 3ako_B*
Length = 307
Score = 33.2 bits (75), Expect = 0.075
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 10 TNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD-- 67
T + L+V +EN KA + + G P + + F G L+D +TL + IQ
Sbjct: 242 TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDYNIQKESTL 300
Query: 68 -LVL 70
LVL
Sbjct: 301 HLVL 304
>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.15.1.1
Length = 105
Score = 31.1 bits (70), Expect = 0.14
Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 46 FQGVLLQDNKKTLKTHGIQDGD-LVLLKHL 74
G L +++K L+ +GI++ D + +K L
Sbjct: 67 SAGEKLTEDRKKLRDYGIRNRDEVSFIKKL 96
>3rt3_B Ubiquitin-like protein ISG15; ubiquitin-like domain, isgylation,
antiviral protein-viral P complex; 2.01A {Homo sapiens}
PDB: 3sdl_C 3r66_C 3pse_B 1z2m_A
Length = 159
Score = 30.7 bits (69), Expect = 0.28
Identities = 10/64 (15%), Positives = 20/64 (31%), Gaps = 4/64 (6%)
Query: 10 TNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD-- 67
+V + + K G + F+G L+D L +G++
Sbjct: 90 KGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ-LPLGEYGLKPLSTV 148
Query: 68 -LVL 70
+ L
Sbjct: 149 FMNL 152
>2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase
complex; HET: 3TL; 1.70A {Feline immunodeficiency virus}
PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A*
4fiv_A* 1fiv_A* 1b11_A*
Length = 116
Score = 30.3 bits (68), Expect = 0.29
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 218 INCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTRWAGIAKGVGVQKILGRI 274
I VNGYP+K +D+GA T++ R + + ++++G I
Sbjct: 16 ILIFVNGYPIKFLLDTGADITVL-----NRRD----FQVKN----SIENGRQMIGGI 59
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 30.7 bits (69), Expect = 0.43
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 9 HTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLKTHGIQDGD- 67
T + L+V +EN KA + + G P + + F G L+D +TL + IQ
Sbjct: 113 LTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDYNIQKEST 171
Query: 68 --LVL 70
LVL
Sbjct: 172 LHLVL 176
>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, MTBI,
transferase; HET: ATM; 1.85A {Staphylococcus aureus
subsp} PDB: 4dwj_A* 4f4i_A
Length = 229
Score = 29.5 bits (67), Expect = 0.95
Identities = 12/72 (16%), Positives = 24/72 (33%)
Query: 121 LLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFDT 180
+ L+ E+ + L+ F + + Y+E E R + +NA
Sbjct: 153 IYLNVSAEVGRERIIKNSRDQNRLDQEDLKFHEKVIEGYQEIIHNESQRFKSVNADQPLE 212
Query: 181 EAQKLIAEEIKK 192
+ + I K
Sbjct: 213 NVVEDTYQTIIK 224
>2ccj_A DTMP kinase, thymidylate kinase; transferase, nucleotide
biosynthesis, TMP-binding, ATP-binding; HET: TMP; 1.7A
{Staphylococcus aureus} PDB: 2cck_A 2ccg_A*
Length = 205
Score = 29.5 bits (67), Expect = 0.99
Identities = 12/72 (16%), Positives = 24/72 (33%)
Query: 121 LLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFDT 180
+ L+ E+ + L+ F + + Y+E E R + +NA
Sbjct: 129 IYLNVSAEVGRERIIKNSRDQNRLDQEDLKFHEKVIEGYQEIIHNESQRFKSVNADQPLE 188
Query: 181 EAQKLIAEEIKK 192
+ + I K
Sbjct: 189 NVVEDTYQTIIK 200
>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle
structural genomics center for infectious transferase;
1.90A {Burkholderia thailandensis}
Length = 227
Score = 29.5 bits (67), Expect = 1.2
Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 121 LLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFDT 180
+L D P +IA ++ R+ D + F R +Y R + R ++++ +
Sbjct: 156 VLFDVPPQIASARRGAVRMPDKF-ESESDAFFARTRAEYLRRAQEAPHRFVIVDS----S 210
Query: 181 EAQKLIAEEIKK 192
E I ++++
Sbjct: 211 EPIAQIRKQLEG 222
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 28.9 bits (64), Expect = 1.4
Identities = 8/57 (14%), Positives = 21/57 (36%), Gaps = 1/57 (1%)
Query: 1 MKVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKT 57
M+V V T E + + + + + K+ G+ + + G + + +
Sbjct: 1 MQVQVKT-LEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELV 56
>1uc2_A PH1602, hypothetical protein PH1602; structural genomics, unknown
function; HET: SUC; 2.15A {Pyrococcus horikoshii} SCOP:
d.261.1.1
Length = 481
Score = 29.3 bits (65), Expect = 1.5
Identities = 10/35 (28%), Positives = 19/35 (54%)
Query: 44 IEFQGVLLQDNKKTLKTHGIQDGDLVLLKHLGSYH 78
+E Q V + + K +G+ +G +V++ H GS
Sbjct: 205 LEVQVVDKIFDPEVAKAYGLFEGQVVVMVHTGSRG 239
>2dzj_A Synaptic glycoprotein SC2; ubiquitin-like fold, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 88
Score = 27.6 bits (61), Expect = 1.5
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 6/79 (7%)
Query: 1 MKVTVSTQHTNE--CFLLDVSEDLELENFK-AFCEVQSGYPAH--EIAIEFQGVLLQDNK 55
+V + T E CFL V + K F + + + ++ +G L+D
Sbjct: 11 YEVEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDED 70
Query: 56 KTLKTHGIQDGDLVLLKHL 74
L+ + + + L
Sbjct: 71 -VLQKLPVGTTATLYFRDL 88
>1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA
polymerase, AS protease, endonuclease, polyprotein; HET:
HYB; 1.80A {Equine infectious anemia virus} SCOP:
b.50.1.1 PDB: 2fmb_A*
Length = 104
Score = 27.9 bits (62), Expect = 1.8
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 4/50 (8%)
Query: 218 INCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTRWAG-IAKGVG 266
+N P+ +D+GA T++++ A R+ ++ G GVG
Sbjct: 11 TIVLINDTPLNVLLDTGADTSVLTTAHYNRLK---YRGRKYQGTGIGGVG 57
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A
{Mason-pfizer monkey virus} PDB: 1nso_A
Length = 114
Score = 27.8 bits (62), Expect = 2.1
Identities = 8/57 (14%), Positives = 16/57 (28%), Gaps = 9/57 (15%)
Query: 218 INCKVNGYPVKAFIDSGAQTTIMSLACAERVNIMRLLDTRWAGIAKGVGVQKILGRI 274
+ ++ I++GA TI+ L W ++ I
Sbjct: 12 LTLWLDDKMFTGLINTGADVTIIKL---------EDWPPNWPITDTLTNLRGIGQSN 59
>2z0h_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide
biosynthesis, nucleotide-binding, transferase,
structural genomics, NPPSFA; HET: ADP TYD; 2.10A
{Thermotoga maritima} PDB: 3hjn_A*
Length = 197
Score = 28.3 bits (64), Expect = 2.3
Identities = 13/73 (17%), Positives = 27/73 (36%), Gaps = 8/73 (10%)
Query: 121 LLLDNPKEIALLQQNNP-RLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFD 179
+D E AL ++ R +F +R+ Y + R+ +L+
Sbjct: 126 FYIDVDVETALKRKGELNRFEK-------REFLERVREGYLVLAREHPERIVVLDGKRSI 178
Query: 180 TEAQKLIAEEIKK 192
E + + E+K+
Sbjct: 179 EEIHRDVVREVKR 191
>2r3b_A YJEF-related protein; putative kinase in the ribokinase-like
superfamily, structur genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.80A {Enterococcus
faecalis} PDB: 2r3e_A
Length = 310
Score = 28.7 bits (65), Expect = 2.5
Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 181 EAQKLIAEEIKKNNIEANMEAAMEYNPETFGTVV 214
E Q+L I++ + N + T+V
Sbjct: 175 EWQRLSHLPIEQQTLANNQRQQAKLG----STIV 204
>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis,
ATP-binding, nucleotide-binding, poxvirus, transferase;
HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB:
2w0s_A*
Length = 204
Score = 28.4 bits (64), Expect = 2.5
Identities = 7/72 (9%), Positives = 29/72 (40%), Gaps = 7/72 (9%)
Query: 121 LLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFDT 180
+ L++ + D F++ + Q+Y++ + + +++++ +
Sbjct: 126 IFLESGSKEINRNVGEEIYED-------VTFQQKVLQEYKKMIEEGDIHWQIISSEFEED 178
Query: 181 EAQKLIAEEIKK 192
++LI + +
Sbjct: 179 VKKELIKNIVIE 190
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 26.7 bits (59), Expect = 2.8
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 4/61 (6%)
Query: 15 LLDVSEDLELENFKAFCEVQSGYPAHEIAIEF----QGVLLQDNKKTLKTHGIQDGDLVL 70
L +S L + +G I + + L D TL IQ GD+++
Sbjct: 14 LQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLGDLPIQSGDMLI 73
Query: 71 L 71
+
Sbjct: 74 V 74
>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold,
ubiquitination, ligase; 2.71A {Homo sapiens} PDB:
2lgy_A
Length = 105
Score = 27.3 bits (60), Expect = 2.8
Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 3/73 (4%)
Query: 1 MKVTVSTQHTNE-CFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQGVLLQDNKKTLK 59
+ V+V + L V D+ + + K + G+P L +D +TL
Sbjct: 25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQ-ETLH 83
Query: 60 THGIQ-DGDLVLL 71
+HG++ +GD L
Sbjct: 84 SHGVRQNGDSAYL 96
>3hkz_Y DNA-directed RNA polymerase subunit 13; archaea, metal-binding,
nucleotidyltransferase, transcription, transferase,
zinc, zinc-finger; 3.40A {Sulfolobus solfataricus}
Length = 104
Score = 27.2 bits (59), Expect = 3.3
Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 14/70 (20%)
Query: 127 KEIALLQQNNPRLADALLNG--SPEDFERILRQQYEEREKREQLRLRMLNAHPFDTEAQK 184
++I LL +N + D LLNG + E+ +++ Y+E EKR+ R +A+K
Sbjct: 39 QDIELLMRNT-EIWDNLLNGKITLEEAKKLFEDNYKEYEKRDSRR-----------KAKK 86
Query: 185 LIAEEIKKNN 194
+++++KK
Sbjct: 87 AVSKKVKKTK 96
>2vz4_A Tipal, HTH-type transcriptional activator TIPA; transcription,
resistance, antibiotic; 2.90A {Streptomyces lividans}
Length = 108
Score = 26.8 bits (60), Expect = 3.4
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 142 ALLNGSPEDFERILRQQYEE-REKREQLRLRMLNA 175
ALL+ D LR+Q+E + +L+ +M A
Sbjct: 66 ALLDDPAADPRAHLRRQHELLSARIGKLQ-KMAAA 99
>2epg_A Hypothetical protein TTHA1785; alpha-beta fold, structural
genomics, NPPSFA, national proje protein structural and
functional analyses; 2.10A {Thermus thermophilus}
Length = 487
Score = 28.4 bits (63), Expect = 3.5
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 44 IEFQGVLLQDNKKTLKTHGIQDGDLVLLKHLGSYH 78
+E Q V +++ G+ G + +L H GS
Sbjct: 217 LEVQYVDEVYDEEAALAFGLFKGQVTVLIHTGSRG 251
>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase,
chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1
d.241.2.1 d.26.1.1 PDB: 1l1p_A
Length = 392
Score = 28.0 bits (63), Expect = 4.2
Identities = 14/72 (19%), Positives = 29/72 (40%), Gaps = 23/72 (31%)
Query: 144 LNGSPEDFERILRQQYEER-EKREQLRLRMLNAHPFDTEAQKLIAEEIKKNNIEAN---- 198
G+ E ++ R+ +EE+ ++R + L L+ E I+ + ++A+
Sbjct: 325 FGGNVEAAAQLPRELFEEQAKRRVVVGL--------------LLGEVIRTHELKADEEKV 370
Query: 199 ----MEAAMEYN 206
E A Y
Sbjct: 371 KALITEMATAYE 382
>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced
antiviral GTPase, membrane associated, PR binding; 3.50A
{Homo sapiens} PDB: 3zys_B
Length = 608
Score = 27.7 bits (61), Expect = 5.4
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 131 LLQQNNPRLADALLN--GSPEDFERILRQQYEEREKREQL--RLRMLNAHPFDTEAQKLI 186
+LQ +L A+L + + +L+++ + +KR+ L RL L +A++ +
Sbjct: 550 MLQTYGQQLQKAMLQLLQDKDTYSWLLKERSDTSDKRKFLKERLARLT------QARRRL 603
Query: 187 AE 188
A+
Sbjct: 604 AQ 605
>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology;
HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB:
4e5u_A* 4esh_A* 3uwk_A* 3uwo_A* 3uxm_A*
Length = 213
Score = 27.1 bits (61), Expect = 6.4
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 1/72 (1%)
Query: 121 LLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKREQLRLRMLNAHPFDT 180
L+ D P EI L + D FE + RQ Y +R + R ++L+A
Sbjct: 136 LVFDLPVEIGLARAAARGRLDRFEQEDRRFFEAV-RQTYLQRAAQAPERYQVLDAGLPLA 194
Query: 181 EAQKLIAEEIKK 192
E Q + +
Sbjct: 195 EVQAGLDRLLPN 206
>1t0y_A Tubulin folding cofactor B; ubiquitin-like, cytoskeleton,
microtubule, CESG, structural genomics, protein
structure initiative, PSI; NMR {Caenorhabditis elegans}
SCOP: d.15.1.1
Length = 122
Score = 26.4 bits (58), Expect = 6.5
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 6/71 (8%)
Query: 2 KVTVSTQHTNECFLLDVSEDLELENFKAFCEVQSGYPAHEIAIEFQG------VLLQDNK 55
+ ++T T+ + L + K E+ G + I+ L D
Sbjct: 8 DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGA 67
Query: 56 KTLKTHGIQDG 66
K+LK G++DG
Sbjct: 68 KSLKDLGVRDG 78
>3r6n_A Desmoplakin; spectrin repeat, SH3 domain, cell adhesion, desmosome;
2.95A {Homo sapiens}
Length = 450
Score = 27.4 bits (60), Expect = 7.6
Identities = 13/95 (13%), Positives = 26/95 (27%), Gaps = 1/95 (1%)
Query: 107 SSNSLSDDPATVRQLLLDNPKEIALLQQNNPRLADALLNGSPEDFERILRQQYEEREKRE 166
+ D A+V Q + + + +L + + L ++YE K
Sbjct: 26 DMVAWGVDLASVEQHINSHRGIHNSIGDYRWQLDKIKADLREKSAIYQLEEEYENLLKAS 85
Query: 167 QLRLRMLN-AHPFDTEAQKLIAEEIKKNNIEANME 200
R+ L + I E +
Sbjct: 86 FERMDHLRQLQNIIQATSREIMWINDCEEEELLYD 120
>3q3e_A HMW1C-like glycosyltransferase; N-glycosylation; 2.10A
{Actinobacillus pleuropneumoniae serovaorganism_taxid}
PDB: 3q3h_A* 3q3i_A
Length = 631
Score = 27.2 bits (60), Expect = 8.5
Identities = 9/72 (12%), Positives = 26/72 (36%), Gaps = 10/72 (13%)
Query: 139 LADALLNGSPEDFERI---LRQQYEEREK-REQLRLRMLNAHPFDTEAQKLIAEEIKKNN 194
L + L+ + +++ L + ++ER + R + F + + +
Sbjct: 566 LPEWLIANTVDEYVERAVRLAENHQERLELRRYIIENNGLNTLFTGDPRPM------GQV 619
Query: 195 IEANMEAAMEYN 206
+ A ++ N
Sbjct: 620 FLEKLNAFLKEN 631
>2r01_A Nitroreductase family protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE FMN; 1.15A {Chlorobium tepidum tls}
Length = 210
Score = 26.5 bits (59), Expect = 8.7
Identities = 16/98 (16%), Positives = 25/98 (25%), Gaps = 13/98 (13%)
Query: 188 EEIKKNNIEANMEAAMEYNPETFGTVVMLYINCKVNGYPVKAFIDSGAQTTIMSLACAER 247
+++ A L + C+ P A DSG + L AE
Sbjct: 70 DKVFPCLKWAGYLEDWPGPEPGERPAAALVMLCRNEDLPG-AACDSGIAAQTIMLGAAE- 127
Query: 248 VNIMRL-LDTRWAGIAKGVGVQKILG-----RIHMAIA 279
L + LG + + IA
Sbjct: 128 -----KELGGCIVAAIDRERLMASLGIPDAWTVLLVIA 160
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
0.317 0.132 0.371
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,639,502
Number of extensions: 289095
Number of successful extensions: 1053
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1037
Number of HSP's successfully gapped: 95
Length of query: 302
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 209
Effective length of database: 4,105,140
Effective search space: 857974260
Effective search space used: 857974260
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.8 bits)