RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11302
(764 letters)
>3oln_A E3 ubiquitin-protein ligase UHRF2; DNA-binding, metal-binding,
nucleus, phosphorylation transcription, transcription
regulation; 2.30A {Homo sapiens}
Length = 231
Score = 295 bits (757), Expect = 1e-95
Identities = 145/230 (63%), Positives = 182/230 (79%), Gaps = 1/230 (0%)
Query: 391 NSKSTRDWGKGMACVGRTKVCTIVPSDHFGPIPGIEVGQSYLYRFQASEAGVHRPHVSGI 450
+++S RDWG+GMACVGRT+ CTIVPS+H+GPIPGI VG ++ +R Q SEAGVHRPHV GI
Sbjct: 2 STESRRDWGRGMACVGRTRECTIVPSNHYGPIPGIPVGSTWRFRVQVSEAGVHRPHVGGI 61
Query: 451 HGREDVGAFSLVLSGGYEDDVDDGDSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNKALA 510
HGR + GA+SLVL+GG+ D+VD GD F YTGSGG++L+GNKR S DQTLT MN+ALA
Sbjct: 62 HGRSNDGAYSLVLAGGFADEVDRGDEFTYTGSGGKNLAGNKRIGAPSADQTLTNMNRALA 121
Query: 511 RNCNAPIDDKRGNEAVDWKKGKPVRVMRNFHGAKHSKYAPKEGNRYDGIYKVVKYYP-VK 569
NC+AP+DDK G E+ +W+ GKPVRV+R+F G K SKYAP+EGNRYDGIYKVVKY+P +
Sbjct: 122 LNCDAPLDDKIGAESRNWRAGKPVRVIRSFKGRKISKYAPEEGNRYDGIYKVVKYWPEIS 181
Query: 570 GSSDFIVWRFHLQRDDEAPAPWTEEGKKRIKDLGLQMIYPEGYEEAQAAK 619
S F+VWR+ L+RDD PAPWT EG +R + L L++ YP GY + K
Sbjct: 182 SSHGFLVWRYLLRRDDVEPAPWTSEGIERSRRLCLRLQYPAGYPSDKEGK 231
>2pb7_A E3 ubiquitin-protein ligase UHRF1; beta barrel, NEW fold; 1.90A
{Homo sapiens} SCOP: b.122.1.12
Length = 239
Score = 270 bits (691), Expect = 9e-86
Identities = 154/238 (64%), Positives = 182/238 (76%)
Query: 406 GRTKVCTIVPSDHFGPIPGIEVGQSYLYRFQASEAGVHRPHVSGIHGREDVGAFSLVLSG 465
G K CTIVPS+H+GPIPGI VG + +R Q SE+GVHRPHV+GIHGR + GA+SLVL+G
Sbjct: 1 GHMKECTIVPSNHYGPIPGIPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAG 60
Query: 466 GYEDDVDDGDSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNKALARNCNAPIDDKRGNEA 525
GYEDDVD G+ F YTGSGGRDLSGNKRT+ QS DQ LT N+ALA NC API+D+ G EA
Sbjct: 61 GYEDDVDHGNFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEA 120
Query: 526 VDWKKGKPVRVMRNFHGAKHSKYAPKEGNRYDGIYKVVKYYPVKGSSDFIVWRFHLQRDD 585
DW+ GKPVRV+RN G K+SKYAP EGNRYDGIYKVVKY+P KG S F+VWR+ L+RDD
Sbjct: 121 KDWRSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRDD 180
Query: 586 EAPAPWTEEGKKRIKDLGLQMIYPEGYEEAQAAKEASKANLKRKVSSETLGESKVKKS 643
+ P PWT+EGK RIK LGL M YPEGY EA A +E K N KR+ + G ++
Sbjct: 181 DEPGPWTKEGKDRIKKLGLTMQYPEGYLEALANREREKENSKREEEEQQEGGFASPRT 238
>3fde_A E3 ubiquitin-protein ligase UHRF1; SRA domain, base flipping, DNA
CPG methylation, cell cycle, developmental protein, DNA
damage; HET: 5CM; 1.41A {Mus musculus} PDB: 2zo0_B*
2zo2_B* 3f8i_A* 2zo1_B* 3f8j_B* 2zkd_A* 2zke_A* 2zkf_A*
2zkg_A 3dwh_A 3bi7_A 3clz_A*
Length = 212
Score = 253 bits (648), Expect = 6e-80
Identities = 140/210 (66%), Positives = 169/210 (80%), Gaps = 1/210 (0%)
Query: 414 VPSDHFGPIPGIEVGQSYLYRFQASEAGVHRPHVSGIHGREDVGAFSLVLSGGYEDDVDD 473
+P++HFGPIPG+ VG + +R Q SE+GVHRPHV+GIHGR + GA+SLVL+GGYEDDVD+
Sbjct: 2 MPANHFGPIPGVPVGTMWRFRVQVSESGVHRPHVAGIHGRSNDGAYSLVLAGGYEDDVDN 61
Query: 474 GDSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNKALARNCNAPIDDKRGNEAVDWKKGKP 533
G+ F YTGSGGRDLSGNKRT+ QS DQ LT N+ALA NC++PI++K EA DW++GKP
Sbjct: 62 GNYFTYTGSGGRDLSGNKRTAGQSSDQKLTNNNRALALNCHSPINEKGA-EAEDWRQGKP 120
Query: 534 VRVMRNFHGAKHSKYAPKEGNRYDGIYKVVKYYPVKGSSDFIVWRFHLQRDDEAPAPWTE 593
VRV+RN G KHSKYAP EGNRYDGIYKVVKY+P +G S F+VWR+ L+RDD P PWT
Sbjct: 121 VRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLRRDDTEPEPWTR 180
Query: 594 EGKKRIKDLGLQMIYPEGYEEAQAAKEASK 623
EGK R + LGL M YPEGY EA A KE S+
Sbjct: 181 EGKDRTRQLGLTMQYPEGYLEALANKEKSR 210
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules,
epigenetic regulation, trimethylaion of lysine residue,
ligase-DNA binding protein; HET: M3L; 2.90A {Homo
sapiens}
Length = 226
Score = 192 bits (488), Expect = 1e-56
Identities = 87/238 (36%), Positives = 130/238 (54%), Gaps = 15/238 (6%)
Query: 130 YKVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDGSSTMKFD 189
YKV +YVDA GAWFE+Q+ + E+D+I+ V + Y ++G M
Sbjct: 3 YKVNEYVDARDTNMGAWFEAQVVRVTRKAPSRPA-LEEDVIYHVKYDDYPENGVVQMNSR 61
Query: 190 DIRPLPKHLITEFNENLIGVRVMGNYNAEEPRERGYWHDMIIEKKQGKRLTTELIATVFI 249
D+R + +I ++ + +G VM NYN + P+ERG+W+D I +K+ R EL A V +
Sbjct: 62 DVRARARTII-KWQDLEVGQVVMLNYNPDNPKERGFWYDAEISRKRETRTARELYANVVL 120
Query: 250 GKKGLETRLENCKIKFVKELYKIESPKLLAERTAEDEDHMSTEPKTLRQIVPECTTCNDV 309
G + L +C+I FV E++KIE P E + R+ P C C D
Sbjct: 121 G----DDSLNDCRIIFVDEVFKIERPG---------EGSPMVDNPMRRKSGPSCKHCKDD 167
Query: 310 ETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
+ C+ C C +C G+ PDK ++C+EC +HI+CL PPL SVP +DEW+CP C+ D
Sbjct: 168 VNRLCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 225
>3q0b_X Histone-lysine N-methyltransferase, H3 lysine-9 S SUVH5; SRA, fully
methylated CG, SUVH5, 5MC binding protein, fully
methylated CG duplex DNA; HET: DNA 5CM; 2.20A
{Arabidopsis thaliana} PDB: 3q0c_X* 3q0d_X* 3q0f_X*
Length = 167
Score = 179 bits (456), Expect = 7e-53
Identities = 62/180 (34%), Positives = 86/180 (47%), Gaps = 22/180 (12%)
Query: 419 FGPIPGIEVGQSYLYRFQASEAGVHRPHVSGIHGREDVG----AFSLVLSGGYEDDVDDG 474
G +PG+EVG + YR + + G+HRP SGI +D G A S+V SGGY D +D+
Sbjct: 3 IGTVPGVEVGDEFQYRMELNLLGIHRPSQSGIDYMKDDGGELVATSIVSSGGYNDVLDNS 62
Query: 475 DSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNKALARNCNAPIDDKRGNEAVDWKKGKPV 534
D +YTG GG G K+ + DQ L N AL + N K PV
Sbjct: 63 DVLIYTGQGGNV--GKKKNNEPPKDQQLVTGNLALKNSIN---------------KKNPV 105
Query: 535 RVMRNFHGAKHSKYAPKEGNRYDGIYKVVKYYPVKGSSDFIVWRFHLQR-DDEAPAPWTE 593
RV+R + YDG+Y V +Y+ GS +V++F L+R + PW E
Sbjct: 106 RVIRGIKNTTLQSSVVAKNYVYDGLYLVEEYWEETGSHGKLVFKFKLRRIPGQPELPWKE 165
>3db3_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, tandem tudor domains, LI metal binding, DNA
replication; HET: M3L; 2.40A {Homo sapiens} PDB: 3db4_A
2l3r_A*
Length = 161
Score = 139 bits (352), Expect = 1e-38
Identities = 54/159 (33%), Positives = 85/159 (53%), Gaps = 13/159 (8%)
Query: 125 ADSQYYKVGDYVDAILETEGAWFESQITHILVDINKE--------KPYDEDDLIFKVVHL 176
+ YKV +YVDA GAWFE+Q+ + +P E+D+I+ V +
Sbjct: 6 TELGLYKVNEYVDARDTNMGAWFEAQVVRVTRKAPSRDEPCSSTSRPALEEDVIYHVKYD 65
Query: 177 KYKDDGSSTMKFDDIRPLPKHLITEFNENLIGVRVMGNYNAEEPRERGYWHDMIIEKKQG 236
Y ++G M D+R + +I ++ + +G VM NYN + P+ERG+W+D I +K+
Sbjct: 66 DYPENGVVQMNSRDVRARARTII-KWQDLEVGQVVMLNYNPDNPKERGFWYDAEISRKRE 124
Query: 237 KRLTTELIATVFIGKKGLETRLENCKIKFVKELYKIESP 275
R EL A V +G + L +C+I FV E++KIE P
Sbjct: 125 TRTARELYANVVLG----DDSLNDCRIIFVDEVFKIERP 159
>1z6u_A NP95-like ring finger protein isoform B; structural genomics
consortium, ligase, ubiquitin-protein ligase, cell cycle
regulation, SGC; 2.10A {Homo sapiens}
Length = 150
Score = 108 bits (272), Expect = 6e-28
Identities = 46/154 (29%), Positives = 76/154 (49%), Gaps = 5/154 (3%)
Query: 611 GYEEAQAAKEASKANLKRKVSSETLGESKVKKSKQVYTLPSSVLEHINNDTVHSNVWDEI 670
G + +S+ S ++ + + L I D + +WDE+
Sbjct: 2 GSSHHHHHHSSGLVPRGSPSASKVYKASDSAEAIEAFQLTPQQQHLIREDCQNQKLWDEV 61
Query: 671 KALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCP 730
+ EG L+ +++ F+C+ CQELVY+P+T +C H C DCL+R+FK + SCP
Sbjct: 62 LSHLVEGPN-FLKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQV---FSCP 117
Query: 731 YCRKEMNKSCLETHSNDALQSILSTLFPGYSSAR 764
CR ++ ++ N+ LQ++L FPGYS R
Sbjct: 118 ACRHDLGQNY-IMIPNEILQTLLDLFFPGYSKGR 150
>3asl_A E3 ubiquitin-protein ligase UHRF1; histone reader module,
epigenetic regulation, LI binding protein complex; 1.41A
{Homo sapiens} PDB: 3sou_A 3sow_A* 3sox_A 3zvy_A 2lgg_A
2lgk_A* 2lgl_A 3t6r_A 3zvz_B
Length = 70
Score = 98.0 bits (244), Expect = 4e-25
Identities = 32/67 (47%), Positives = 44/67 (65%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
P C C D + C+ C C +C G+ PDK ++C+EC +HI+CL PPL SVP +DEW+
Sbjct: 3 PSCKHCKDDVNRLCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWY 62
Query: 361 CPSCKRD 367
CP C+ D
Sbjct: 63 CPECRND 69
>3shb_A E3 ubiquitin-protein ligase UHRF1; unmodified histone, methylation,
UHRF1, PHD, ligase-NUCL protein complex; 1.80A {Homo
sapiens}
Length = 77
Score = 97.6 bits (243), Expect = 6e-25
Identities = 32/67 (47%), Positives = 44/67 (65%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
P C C D + C+ C C +C G+ PDK ++C+EC +HI+CL PPL SVP +DEW+
Sbjct: 11 PSCKHCKDDVNRLCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWY 70
Query: 361 CPSCKRD 367
CP C+ D
Sbjct: 71 CPECRND 77
>2e6s_A E3 ubiquitin-protein ligase UHRF2; PHD domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 77
Score = 97.6 bits (243), Expect = 8e-25
Identities = 32/71 (45%), Positives = 43/71 (60%)
Query: 297 RQIVPECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPED 356
+ EC C K C C C +C GK P+ ++C+EC YHI+CL PPL+ VPE+
Sbjct: 7 GRNDTECDLCGGDPEKKCHSCSCRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEE 66
Query: 357 DEWFCPSCKRD 367
+ W+CPSCK D
Sbjct: 67 EYWYCPSCKTD 77
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, ring finger domain, metal binding, DNA
replication; 1.75A {Homo sapiens}
Length = 124
Score = 97.7 bits (243), Expect = 3e-24
Identities = 45/126 (35%), Positives = 68/126 (53%), Gaps = 10/126 (7%)
Query: 645 QVYTLPSSVLEHINNDTVHSNVWDEIKALCKEGQKE------VLEHIQEKFLCIICQELV 698
+ Y+L + I D ++ +W+E+ A K+ L ++E F CI CQELV
Sbjct: 3 EPYSLTAQQSSLIREDKSNAKLWNEVLASLKDRPASGSPFQLFLSKVEETFQCICCQELV 62
Query: 699 YKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLETHSNDALQSILSTLFP 758
++PIT C H C DCL R+F+ + SCP CR ++ +S N LQ++L+ LFP
Sbjct: 63 FRPITTVCQHNVCKDCLDRSFRAQV---FSCPACRYDLGRS-YAMQVNQPLQTVLNQLFP 118
Query: 759 GYSSAR 764
GY + R
Sbjct: 119 GYGNGR 124
>2e6r_A Jumonji/ARID domain-containing protein 1D; PHD domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 92
Score = 76.9 bits (189), Expect = 2e-17
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 1/83 (1%)
Query: 302 ECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFC 361
+ + C +C+ DKL+ C+ C YHI+CL PPL +P W C
Sbjct: 2 SSGSSGHSSAQFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGI-WRC 60
Query: 362 PSCKRDTSEVIAPGQKLKDSKKK 384
P C + + + ++
Sbjct: 61 PKCILAECKQPPEAFGFEQATQE 83
>1f62_A Transcription factor WSTF; Zn-finger; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 51
Score = 75.1 bits (185), Expect = 3e-17
Identities = 22/50 (44%), Positives = 33/50 (66%), Gaps = 1/50 (2%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDT 368
C +C K DKLI+C+EC +H++CL+P L VP+ + W CP+C+ T
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGE-WQCPACQPAT 51
>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 = 75.1 bits (185), Expect = 5e-17
Identities = 30/74 (40%), Positives = 51/74 (68%), Gaps = 1/74 (1%)
Query: 1 MYVKIRSLDGSKNCVL-VLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD 59
M++++R++DG + + LS+ T + +++ +I+ V QRLFY+GKQ+ED + LFD
Sbjct: 3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGHTLFD 62
Query: 60 YNVNLNDVIQLMIK 73
Y V LND IQL+++
Sbjct: 63 YEVRLNDTIQLLVR 76
>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 = 73.2 bits (180), Expect = 3e-16
Identities = 33/74 (44%), Positives = 56/74 (75%), Gaps = 1/74 (1%)
Query: 1 MYVKIRSLDGSKNCVLV-LSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD 59
M++++R++DGSK C + +S++ I +++ ++ DV + QRLFY+GKQLE+ Y LFD
Sbjct: 8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGYTLFD 67
Query: 60 YNVNLNDVIQLMIK 73
Y+V LND+IQL+++
Sbjct: 68 YDVGLNDIIQLLVR 81
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 72.4 bits (177), Expect = 4e-15
Identities = 22/95 (23%), Positives = 44/95 (46%), Gaps = 4/95 (4%)
Query: 670 IKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSC 729
++A +E + + ++ + CIIC E + +TL+C H+FC C+ K + C
Sbjct: 46 MQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRK----IEC 101
Query: 730 PYCRKEMNKSCLETHSNDALQSILSTLFPGYSSAR 764
P CRK++ ++ + +++ L R
Sbjct: 102 PICRKDIKSKTYSLVLDNCINKMVNNLSSEVKERR 136
>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA
damage, chromatin regulator, chromosomal protein, DNA
repair, metal-binding; 2.12A {Homo sapiens}
Length = 115
Score = 71.1 bits (174), Expect = 4e-15
Identities = 22/84 (26%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 686 QEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCL---- 741
+ C IC E++ +P+TL C HT C C + + A CP+CR+ ++
Sbjct: 13 LSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVE---KASLCCPFCRRRVSSWTRYHTR 69
Query: 742 -ETHSNDALQSILSTLFPGYSSAR 764
+ N L +I+ +P R
Sbjct: 70 RNSLVNVELWTIIQKHYPRECKLR 93
>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 = 69.5 bits (170), Expect = 1e-14
Identities = 17/74 (22%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 1 MYVKIRSLDGSKNCVL-VLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD 59
+ V + + + + V S + +K +I + +P +KQ+L K L+D L
Sbjct: 30 IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNMSLAH 89
Query: 60 YNVNLNDVIQLMIK 73
YNV +++ L ++
Sbjct: 90 YNVGAGEILTLSLR 103
>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 = 67.6 bits (166), Expect = 2e-14
Identities = 17/74 (22%), Positives = 31/74 (41%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + I G + ++ + + K I +PV QRL Y GK L+D+ + Y
Sbjct: 3 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY 62
Query: 61 NVNLNDVIQLMIKA 74
++ + L+
Sbjct: 63 HIQDGHSVHLVKSQ 76
>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 = 67.7 bits (166), Expect = 3e-14
Identities = 25/86 (29%), Positives = 47/86 (54%), Gaps = 2/86 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++LD + ++ + + + K I ++ +P +KQRL Y+G+ L+D+ L +Y
Sbjct: 6 LEVLVKTLDS-QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 64
Query: 61 NVNLNDVIQLMIKADIDKNYQSSESS 86
NV VI L+ +A + S SS
Sbjct: 65 NVG-GKVIHLVERAPPQTHLPSGASS 89
>2kwj_A Zinc finger protein DPF3; acetyl-lysine, transcription regulation,
nucleus, metal BIND protein; HET: ALY; NMR {Homo
sapiens} PDB: 2kwk_A 2kwn_A* 2kwo_A*
Length = 114
Score = 68.5 bits (167), Expect = 3e-14
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 298 QIVPECTTCNDVETKHCKDCG-CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPED 356
Q T C +C C +C + D+L+ C++C YH++CL PP+ PE
Sbjct: 39 QFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEG 98
Query: 357 DEWFCPSCKRDTSE 370
W C C E
Sbjct: 99 S-WSCHLCWELLKE 111
Score = 44.7 bits (105), Expect = 7e-06
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 313 HCKDC--GCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDD--EWFCPSCK 365
+C C G ++ P++L+ C +C H CL+ L +W C CK
Sbjct: 3 YCDFCLGGSNMNKKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECK 59
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD
domain, histone-lysine N-methyltransferase, H3 lysine-4
specific MLL3; NMR {Homo sapiens}
Length = 111
Score = 67.7 bits (165), Expect = 7e-14
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 313 HCKDC-GCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTS 369
C +C C C K++VC+ C YH +CL+P ++SVP + W C +C+ S
Sbjct: 50 QCPECKVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNG-WKCKNCRICIS 106
Score = 55.4 bits (133), Expect = 1e-09
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
C++C C C +YH CL + + W CP CK
Sbjct: 10 CAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAG-WQCPECK 55
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold,
GP78-binding, chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 66.5 bits (163), Expect = 8e-14
Identities = 21/73 (28%), Positives = 42/73 (57%), Gaps = 2/73 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++LD + ++ + + + K I ++ +P +KQRL Y+G+ L+D+ L +Y
Sbjct: 18 LEVLVKTLDS-QTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDDKKLQEY 76
Query: 61 NVNLNDVIQLMIK 73
NV VI L+ +
Sbjct: 77 NVG-GKVIHLVER 88
>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 = 66.3 bits (162), Expect = 1e-13
Identities = 16/74 (21%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+++R G K+ LV+ + MK ++ V QR F+ G+ L D+ +
Sbjct: 24 CQLRLRLSTG-KDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPLTDKMKFEEL 82
Query: 61 NVNLNDVIQLMIKA 74
+ + V+Q+++
Sbjct: 83 KIPKDYVVQVIVSQ 96
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 65.4 bits (160), Expect = 2e-13
Identities = 26/73 (35%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G + C L + + L+S +K + L+VPV +QRL +KGK L D L DY
Sbjct: 8 MQLTVKALQG-RECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADGKRLSDY 66
Query: 61 NVNLNDVIQLMIK 73
++ N + L++K
Sbjct: 67 SIGPNSKLNLVVK 79
>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 = 64.9 bits (159), Expect = 2e-13
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M +K+++L G K + + + +K ++E +P +QRL Y GKQ+ DE DY
Sbjct: 1 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 59
Query: 61 NVNLNDVIQLMIK 73
+ V+ L++
Sbjct: 60 KILGGSVLHLVLA 72
>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 64.8 bits (158), Expect = 2e-13
Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 676 EGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
G ++ +++K+ C C ++ P +C H FC C+ S C C++
Sbjct: 3 SGSSGFVKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSP---KCTACQES 59
Query: 736 MNK 738
+ K
Sbjct: 60 IVK 62
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 65.4 bits (160), Expect = 3e-13
Identities = 17/74 (22%), Positives = 31/74 (41%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + I G + ++ + + K I +PV QRL Y GK L+D+ + Y
Sbjct: 27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQTVESY 86
Query: 61 NVNLNDVIQLMIKA 74
++ + L+
Sbjct: 87 HIQDGHSVHLVKSQ 100
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 63.8 bits (156), Expect = 6e-13
Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQ-LEDEYMLFD 59
M + +L+GS + V + T + +K +IE + +PV KQ L G L ++ +
Sbjct: 11 MKFLVENLNGSSFELEVDYRDT-LLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQ 69
Query: 60 YNVNLNDVIQLMIKA 74
+ IQL + +
Sbjct: 70 CQIVPTSDIQLEVSS 84
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 64.9 bits (158), Expect = 8e-13
Identities = 15/90 (16%), Positives = 39/90 (43%), Gaps = 2/90 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++ + + + + + K I D+ L + GK L+D+ L +
Sbjct: 33 IKVTVKTPKEKEE--FAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQDTLIQH 90
Query: 61 NVNLNDVIQLMIKADIDKNYQSSESSSKEN 90
++ + L+IK D + + +++ E+
Sbjct: 91 GIHDGLTVHLVIKRDPNSSSVDKYAAALEH 120
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb,
E3-ligase, nuclear protein, chromosomal protein,
transcription regulation; 2.0A {Mus musculus} PDB:
3rpg_B 2h0d_A
Length = 108
Score = 64.1 bits (156), Expect = 9e-13
Identities = 20/84 (23%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 682 LEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSC 740
+ + +C++C T+ +C+H+FC C+ R + CP C +++K+
Sbjct: 9 ITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS----KYCPICDVQVHKTR 64
Query: 741 LET--HSNDALQSILSTLFPGYSS 762
S+ LQ I+ L PG
Sbjct: 65 PLLNIRSDKTLQDIVYKLVPGLFK 88
>2yql_A PHD finger protein 21A; PHD domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 56
Score = 62.4 bits (152), Expect = 1e-12
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 4/47 (8%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
CS+C +L++C+ C YH+ CL PPL+++P+ W CP C+
Sbjct: 12 CSVCRK---SGQLLMCDTCSRVYHLDCLDPPLKTIPKGM-WICPRCQ 54
>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 = 63.1 bits (154), Expect = 1e-12
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 4 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 63 NIQKWSTLFLLLR 75
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 62.5 bits (152), Expect = 1e-12
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 5/64 (7%)
Query: 677 GQKEVLEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
G L + LC IC+ + T+ +C+HTFC C+ R F N CP C
Sbjct: 4 GSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS----NRCPKCNIV 59
Query: 736 MNKS 739
++++
Sbjct: 60 VHQT 63
>2puy_A PHD finger protein 21A; PHD finger, histone CODE, BRAF-HDAC
complex, transcription; 1.43A {Homo sapiens}
Length = 60
Score = 62.1 bits (151), Expect = 1e-12
Identities = 18/47 (38%), Positives = 29/47 (61%), Gaps = 4/47 (8%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
CS+C +L++C+ C YH+ CL PPL+++P+ W CP C+
Sbjct: 8 CSVCRK---SGQLLMCDTCSRVYHLDCLDPPLKTIPKGM-WICPRCQ 50
>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 = 63.6 bits (155), Expect = 2e-12
Identities = 15/97 (15%), Positives = 37/97 (38%), Gaps = 1/97 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ + ++ K + + T I + KT++ ++ + +L Y GK L+D + +
Sbjct: 2 VSLTFKNFKKEKVPLDLEPSNT-ILETKTKLAQSISCEESQIKLIYSGKVLQDSKTVSEC 60
Query: 61 NVNLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPA 97
+ D + M+ + +E + A
Sbjct: 61 GLKDGDQVVFMVSQKKSTKTKVTERDPNSSSVDKLAA 97
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 62.4 bits (152), Expect = 2e-12
Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 681 VLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
+ +QE+ +C IC +++ KP+T+DC H FC C+ + + S CP C+
Sbjct: 13 FVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGE-TSCGFFKCPLCKTS 66
>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 = 62.7 bits (153), Expect = 2e-12
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M +K+++L G K + + + +K ++E +P +QRL Y GKQ+ DE DY
Sbjct: 1 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 59
Query: 61 NVNLNDVIQLMIK 73
+ V+ L++
Sbjct: 60 KILGGSVLHLVLA 72
>3v43_A Histone acetyltransferase KAT6A; MOZ, PHD finger,
transferase-structural protein; 1.47A {Homo sapiens}
PDB: 2ln0_A
Length = 112
Score = 62.8 bits (152), Expect = 3e-12
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 3/67 (4%)
Query: 301 PECTTCNDVETKHCKDCG-CSICAGK-TSPDKLIVCEECQHYYHIWCLKPPLESVPEDDE 358
PE T C +C CS C + + D ++ C+ C +H+ C PPL +P+
Sbjct: 45 PELTVRVKALRWQCIECKTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGM- 103
Query: 359 WFCPSCK 365
W C C+
Sbjct: 104 WICQICR 110
Score = 47.0 bits (111), Expect = 1e-06
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 314 CKDC-GCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLE--SVPEDDEWFCPSC 364
C C G + P++LI C +C + H CLK E + W C C
Sbjct: 8 CSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIEC 61
>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 = 62.8 bits (153), Expect = 3e-12
Identities = 15/74 (20%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++ + ++ I +K +I D+ L + GK L+D L
Sbjct: 18 IKVTVKTPKDKE--DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQC 75
Query: 61 NVNLNDVIQLMIKA 74
V + L+IK
Sbjct: 76 GVRDGLTVHLVIKR 89
>2l5u_A Chromodomain-helicase-DNA-binding protein 4; CHD4, MI2B, MI2-beta,
PHD, protein binding, peptide binding metal binding
protein; NMR {Homo sapiens}
Length = 61
Score = 60.9 bits (148), Expect = 4e-12
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
C +C ++I+C+ C YH+ CL P +E PE W CP C+++
Sbjct: 14 CEVCQQG---GEIILCDTCPRAYHMVCLDPDMEKAPEGK-WSCPHCEKE 58
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 61.4 bits (149), Expect = 4e-12
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 686 QEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLE 742
C IC + P++L C H FC+ C+K A + C CR+E+ + L+
Sbjct: 13 LTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG----KRCALCRQEIPEDFLD 65
>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 = 62.0 bits (151), Expect = 4e-12
Identities = 13/74 (17%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++ L++ + + K QI L D+ L + GK L D+ +L
Sbjct: 18 IRVSVKTPQDCHE--FFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQDILSQR 75
Query: 61 NVNLNDVIQLMIKA 74
+ + +++++
Sbjct: 76 GILDGSTVHVVVRS 89
>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 112
Score = 62.4 bits (152), Expect = 4e-12
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 3/88 (3%)
Query: 669 EIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNS 728
++ AL E + V+ +Q+ C IC EL+ +P++ C H FC C+ + + +
Sbjct: 2 DLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLN-QKKGPSQ 60
Query: 729 CPYCRKEMNKSCLETHSNDALQSILSTL 756
CP C+ ++ K L+ + ++ L
Sbjct: 61 CPLCKNDITKRSLQE--STRFSQLVEEL 86
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 61.2 bits (149), Expect = 5e-12
Identities = 24/73 (32%), Positives = 45/73 (61%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G + +L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 4 MRIVVKTLMG-RTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 62
Query: 61 NVNLNDVIQLMIK 73
N++ + + L++K
Sbjct: 63 NIHNHSALYLLLK 75
>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 = 63.3 bits (154), Expect = 5e-12
Identities = 4/73 (5%), Positives = 16/73 (21%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M ++ + V+ + T + E + + + +
Sbjct: 1 MSDTEAPVEV-QEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLV 59
Query: 61 NVNLNDVIQLMIK 73
+ +
Sbjct: 60 DYVQVRQPIFVAH 72
>1mm2_A MI2-beta; PHD, zinc finger, protein scaffold, DNA binding protein;
NMR {Homo sapiens} SCOP: g.50.1.2 PDB: 2l75_A* 1mm3_A
Length = 61
Score = 60.1 bits (146), Expect = 7e-12
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
C +C +L+ C+ C YHI CL PPL +P + W CP C
Sbjct: 12 CRVCKD---GGELLCCDTCPSSYHIHCLNPPLPEIPNGE-WLCPRCT 54
>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 = 60.9 bits (148), Expect = 7e-12
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M +K+++L G K + + + +K ++E +P +QRL Y GKQ+ DE DY
Sbjct: 13 MLIKVKTLTG-KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDEKTAADY 71
Query: 61 NVNLNDVIQLMIK 73
+ V+ L+++
Sbjct: 72 KILGGSVLHLVLR 84
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 61.3 bits (149), Expect = 7e-12
Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 682 LEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSC 740
++ I + C IC E + + C H +C C+++ ++ CP C + +
Sbjct: 16 MKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT----QCPTCCVTVTEPD 71
Query: 741 LETHSNDALQSILSTL 756
L +N L ++ +L
Sbjct: 72 L--KNNRILDELVKSL 85
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 60.1 bits (146), Expect = 8e-12
Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 680 EVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYC 732
+ + +QE+ +C IC +++ KP+T+DC H FC C+ + + S CP C
Sbjct: 12 QFVNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGE-TSCGFFKCPLC 63
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 60.5 bits (147), Expect = 9e-12
Identities = 22/57 (38%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 681 VLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAF--KIESDACNSCPYCRKE 735
VLE I+E+ C IC EL+ +P++ DC H+FC C+ + +D +CP CR
Sbjct: 12 VLEMIKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68
>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 = 60.0 bits (146), Expect = 1e-11
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 60 NIQRESTLHLVLR 72
>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 = 60.8 bits (148), Expect = 1e-11
Identities = 15/74 (20%), Positives = 29/74 (39%), Gaps = 2/74 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++ + ++ I +K +I D+ L + GK L+D L
Sbjct: 23 IKVTVKTPKDKE--DFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPDSLAQC 80
Query: 61 NVNLNDVIQLMIKA 74
V + L+IK
Sbjct: 81 GVRDGLTVHLVIKR 94
>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain, tripartite
motif protein 34, interferon- responsive finger protein
1; NMR {Homo sapiens}
Length = 79
Score = 60.0 bits (146), Expect = 1e-11
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 682 LEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACN---SCPYCRKEMNK 738
++QE+ C IC EL+ +P++LDC H+ C C+ + K + SCP C +
Sbjct: 6 SGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSF 65
Query: 739 SCLETHSNDALQSI 752
L+ N L +I
Sbjct: 66 EHLQA--NQHLANI 77
>2yt5_A Metal-response element-binding transcription factor 2;
zinc-regulated factor 1, ZIRF1, metal-response element
DNA-binding protein M96; NMR {Mus musculus}
Length = 66
Score = 59.1 bits (143), Expect = 2e-11
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Query: 319 CSICAGKTS--PDKLIVCEECQHYYHIWCLKPPLESV--PEDDEWFCPSCKRDTS 369
C+IC + S P+++++C++C YH C P ++S D++W C C T+
Sbjct: 9 CTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCVFATT 63
>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 = 59.6 bits (145), Expect = 2e-11
Identities = 13/71 (18%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M V +R + + T I +K + VP D+ R+ + GK+L + + +
Sbjct: 1 MIVFVRFNSS-YGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNHLTVQNC 59
Query: 61 NVNLNDVIQLM 71
++ ++ ++
Sbjct: 60 DLEQQSIVHIV 70
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 60.1 bits (146), Expect = 2e-11
Identities = 14/74 (18%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M V +++ + + + + + K +I D+ L + GK L+D+ L +
Sbjct: 26 MKVTVKTPKEKE--EFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQDTLSQH 83
Query: 61 NVNLNDVIQLMIKA 74
++ + L+IK
Sbjct: 84 GIHDGLTVHLVIKT 97
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase,
nuclear protein, chromosomal protein, transcription
regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Length = 165
Score = 61.9 bits (150), Expect = 2e-11
Identities = 19/87 (21%), Positives = 37/87 (42%), Gaps = 11/87 (12%)
Query: 682 LEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSC 740
+ + +C IC +++ +T +C+H FC DC+ A + CP CR K
Sbjct: 48 PRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALR---SGNKECPTCR----KKL 100
Query: 741 LETHS---NDALQSILSTLFPGYSSAR 764
+ S + +++S ++P
Sbjct: 101 VSKRSLRPDPNFDALISKIYPSRDEYE 127
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 60.3 bits (146), Expect = 2e-11
Identities = 24/72 (33%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 36 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 94
Query: 61 NVNLNDVIQLMI 72
N+ + L++
Sbjct: 95 NIQKESTLHLVL 106
>2wyq_A HHR23A, UV excision repair protein RAD23 homolog A; DNA binding
protein, DNA excision repair, proteasomal degrad
polyubiquitin; 1.65A {Homo sapiens} PDB: 1p98_A 1p9d_U
1p1a_A
Length = 85
Score = 59.6 bits (145), Expect = 2e-11
Identities = 16/76 (21%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIEN---TLDVPVDKQRLFYKGKQLEDEYML 57
+ + +++L + + + + +K +IE PV Q+L Y GK L D+ +
Sbjct: 6 VTITLKTLQQ-QTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 64
Query: 58 FDYNVNLNDVIQLMIK 73
DY ++ + + +M+
Sbjct: 65 RDYRIDEKNFVVVMVT 80
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 59.3 bits (144), Expect = 2e-11
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ + I++L G K + + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 10 LQLFIKTLTG-KTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 68
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 69 NIQKESTLHLVLR 81
>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL conjugation,
UBL conjugation pathway; 2.10A {Homo sapiens} PDB:
3hcu_A 2eci_A 2jmd_A
Length = 118
Score = 60.2 bits (146), Expect = 3e-11
Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 683 EHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLE 742
++ K+ C IC + + + C H FC C+ ++ + + CP + + ++ L
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLENQL- 68
Query: 743 THSNDALQSILSTLF 757
++ + + +L
Sbjct: 69 -FPDNFAKREILSLM 82
>1fp0_A KAP-1 corepressor; PHD domain, C3HC4 type zinc binding domain,
-structure, transcription; NMR {Homo sapiens} SCOP:
g.50.1.2
Length = 88
Score = 59.2 bits (143), Expect = 3e-11
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
+ C +C P L++C +C+ +H+ C P L+ VP ++ W
Sbjct: 12 SDIIDEFGTLDDSATIC--RVCQK---PGDLVMCNQCEFCFHLDCHLPALQDVPGEE-WS 65
Query: 361 CPSCK 365
C C
Sbjct: 66 CSLCH 70
>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 = 59.0 bits (143), Expect = 4e-11
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 2 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 60
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 61 NIQKESTLHLVLR 73
>1xwh_A Autoimmune regulator; PHD domain, Zn binding domain, apeced,
nucleosome, E3 ligase, transcription; NMR {Homo sapiens}
PDB: 2ke1_A 2kft_A
Length = 66
Score = 58.2 bits (141), Expect = 4e-11
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAP 374
C++C +LI C+ C +H+ CL PPL +P W C SC + T + + P
Sbjct: 11 CAVCRD---GGELICCDGCPRAFHLACLSPPLREIPSGT-WRCSSCLQATVQEVQP 62
>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: g.50.1.2
Length = 88
Score = 58.5 bits (141), Expect = 5e-11
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 305 TCNDVETKHCKDCGCSICAGKTSP--DKLIVCEECQHYYHIWCLKPPLESVPEDD---EW 359
+ + C +C T ++L+ C+EC + YH C KP + +D W
Sbjct: 5 SSGADDFAMEMGLACVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVW 64
Query: 360 FCPSCKRDTSEVIAPGQK 377
+C C R + QK
Sbjct: 65 YCARCTRQMKRMAQKNQK 82
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 59.4 bits (144), Expect = 5e-11
Identities = 23/73 (31%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ ++L G K L + I ++K++I++ +P D+QRL + GKQLED L DY
Sbjct: 10 FQIFAKTLTG-KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDGRTLSDY 68
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 69 NIQRESTLHLVLR 81
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 59.0 bits (143), Expect = 5e-11
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 60 NIQKESTLHLVLR 72
>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM,
riken structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 95
Score = 58.9 bits (143), Expect = 5e-11
Identities = 21/97 (21%), Positives = 45/97 (46%), Gaps = 7/97 (7%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIEN---TLDVPVDKQRLFYKGKQLEDEYML 57
M V +++L + + + T + +K +IE+ PV Q+L Y GK L D+ L
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEET-VKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDTAL 59
Query: 58 FDYNVNLNDVIQLMIKADIDKNYQSSESSSKENIQPN 94
+Y ++ + + +M+ K + ++ E+ +
Sbjct: 60 KEYKIDEKNFVVVMVTK--PKAVSTPAPATLEH-HHH 93
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 58.4 bits (142), Expect = 5e-11
Identities = 22/56 (39%), Positives = 34/56 (60%), Gaps = 2/56 (3%)
Query: 681 VLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFK--IESDACNSCPYCRK 734
+L +++E+ C IC EL+ +P++LDC H+FC CL K + +SCP CR
Sbjct: 12 ILVNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRI 67
>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 = 59.0 bits (143), Expect = 6e-11
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 8 LDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDV 67
L+G + V L +S +K +I +P KQ+L Y+G ++D L YN+ V
Sbjct: 43 LNG-QGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMASGAV 101
Query: 68 IQLMIK 73
I L +K
Sbjct: 102 IHLALK 107
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 56.9 bits (138), Expect = 7e-11
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 681 VLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYC 732
LE++Q + C +C E + +P+ ++C H FC C+ R ++ + + CP C
Sbjct: 8 ALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWE-DLERDFPCPVC 58
>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc
binuclear cluster, zinc finger, DNA-binding protein;
2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1
Length = 116
Score = 58.8 bits (142), Expect = 8e-11
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
Query: 683 EHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLE 742
H + C IC+ ++ P+ C H FC C+ R K+ + CP CR + LE
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMG---SYCPSCRYPCFPTDLE 74
Query: 743 THSNDALQSILSTL 756
+ +IL++L
Sbjct: 75 -SPVKSFLNILNSL 87
>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 = 57.4 bits (139), Expect = 1e-10
Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V +++ DG + I +K QIE+ +P +Q+L ++G+ L+D L Y
Sbjct: 8 IQVFVKNPDGGSYAYAINPNSF-ILGLKQQIEDQQGLPKKQQQLEFQGQVLQDWLGLGIY 66
Query: 61 NVNLNDVIQLMIK 73
+ +D + L K
Sbjct: 67 GIQDSDTLILSKK 79
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; HET: MSE; 2.29A {Homo
sapiens}
Length = 100
Score = 57.6 bits (139), Expect = 1e-10
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 4/65 (6%)
Query: 678 QKEVLEHIQEKFLCIICQELVYKP-ITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEM 736
++ +E I E F C IC E + + C C C++R + CP+CR +
Sbjct: 12 DEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQR---AQCPHCRAPL 68
Query: 737 NKSCL 741
L
Sbjct: 69 QLREL 73
Score = 27.5 bits (61), Expect = 5.2
Identities = 11/58 (18%), Positives = 15/58 (25%), Gaps = 18/58 (31%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF------CPSCKRDTSE 370
C IC K +C C C++ W CP C+
Sbjct: 25 CFICMEK--LRDARLCPHCSKLCCFSCIR----------RWLTEQRAQCPHCRAPLQL 70
>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 = 59.2 bits (143), Expect = 2e-10
Identities = 27/121 (22%), Positives = 52/121 (42%), Gaps = 2/121 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K++I++ +P D+QRL + GKQLED L DY
Sbjct: 1 MQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 61 NVNLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPACK-PNINTENASSSGNNTEPEDF 119
N+ + L+++ + + + ++ S +P D
Sbjct: 60 NIQKESTLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDL 119
Query: 120 V 120
Sbjct: 120 T 120
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 56.3 bits (136), Expect = 3e-10
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 5/58 (8%)
Query: 682 LEHIQEKFLCIICQEL----VYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
L+ ++E C IC E +P L C HT C CL++ + CP+C K
Sbjct: 9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGV-RCPFCSKI 65
>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 = 55.8 bits (135), Expect = 4e-10
Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ + ++ G K+ L +S + D+K+Q++ +V Q+L +KGK L + L
Sbjct: 13 IKLTVKF--GGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETSTLKQS 70
Query: 61 NVNLNDVIQLM 71
+V + LM
Sbjct: 71 DVGSGAKLMLM 81
>1oqy_A HHR23A, UV excision repair protein RAD23 homolog A; DNA repair,
proteasome-mediated degradation, protein- protein
interaction, replication; NMR {Homo sapiens} SCOP:
a.5.2.1 a.5.2.1 a.189.1.1 d.15.1.1 PDB: 1qze_A 1tp4_A
Length = 368
Score = 61.2 bits (147), Expect = 5e-10
Identities = 21/120 (17%), Positives = 43/120 (35%), Gaps = 4/120 (3%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTL---DVPVDKQRLFYKGKQLEDEYML 57
+ + +++L + + + +K +IE PV Q+L Y GK L D+ +
Sbjct: 8 VTITLKTLQQQTF-KIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDVPI 66
Query: 58 FDYNVNLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPACKPNINTENASSSGNNTEPE 117
DY ++ + + +M+ S+ + P P T S +
Sbjct: 67 RDYRIDEKNFVVVMVTKTKAGQGTSAPPEASPTAAPESSTSFPPAPTSGMSHPPPAARED 126
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 55.2 bits (133), Expect = 5e-10
Identities = 15/63 (23%), Positives = 21/63 (33%), Gaps = 4/63 (6%)
Query: 676 EGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
G E + F C IC++ P+ C H FC C F+ C C +
Sbjct: 3 SGSSGGSEEEEIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATP----RCYICDQP 58
Query: 736 MNK 738
Sbjct: 59 TGG 61
Score = 34.4 bits (79), Expect = 0.016
Identities = 17/72 (23%), Positives = 29/72 (40%), Gaps = 10/72 (13%)
Query: 319 CSICAGK-TSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQK 377
C IC +P V +C+HY+ C + P C C + T + P ++
Sbjct: 18 CFICRQAFQNP----VVTKCRHYFCESCALEHFRATPR-----CYICDQPTGGIFNPAKE 68
Query: 378 LKDSKKKARMAS 389
L +K+ +S
Sbjct: 69 LMAKLQKSGPSS 80
>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein
of testis, proliferation potential-related protein,
protein P2P-R; NMR {Homo sapiens}
Length = 74
Score = 54.4 bits (131), Expect = 1e-09
Identities = 15/54 (27%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 683 EHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
+ I ++ LC+IC++++ + + C +++C +C++ A +ESD +CP C +
Sbjct: 10 DPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL-LESDEH-TCPTCHQN 61
>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 = 54.7 bits (132), Expect = 1e-09
Identities = 14/71 (19%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ + +R+ G ++ + ++ +K Q+ V D L ++GK LED+ L +Y
Sbjct: 5 LSILVRNNKG-RSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY 63
Query: 61 NVNLNDVIQLM 71
+ + +
Sbjct: 64 GLKPLSTVFMN 74
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 53.5 bits (129), Expect = 1e-09
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 8/52 (15%)
Query: 686 QEKFL-CIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEM 736
+ +FL C CQ P L C+HT C CL+ + CP C+
Sbjct: 3 EFQFLRCQQCQAEAKCPKLLPCLHTLCSGCLEASGM-------QCPICQAPW 47
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 53.9 bits (130), Expect = 2e-09
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 682 LEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKS 739
++ + ++ C IC + + L C H+FC C+ + +CP CR +M +
Sbjct: 9 VKQLTDEEECCICMDG-RADLILPCAHSFCQKCIDKWSDRH----RNCPICRLQMTGA 61
Score = 30.4 bits (69), Expect = 0.32
Identities = 12/54 (22%), Positives = 17/54 (31%), Gaps = 19/54 (35%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CPSCKRD 367
C IC + L C H + C+ D+W CP C+
Sbjct: 18 CCICMDGRADLIL----PCAHSFCQKCI----------DKWSDRHRNCPICRLQ 57
>3knv_A TNF receptor-associated factor 2; cross-brace, alternative
splicing, apoptosis, cytoplasm, metal-binding, UBL
conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}
Length = 141
Score = 55.9 bits (134), Expect = 2e-09
Identities = 13/65 (20%), Positives = 24/65 (36%), Gaps = 3/65 (4%)
Query: 679 KEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
+ ++ K+LC C+ ++ +P C H +C CL +C C E
Sbjct: 22 TLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASILSSGPQ---NCAACVHEGIY 78
Query: 739 SCLET 743
+
Sbjct: 79 EEGIS 83
>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL conjugation,
UBL conjugation pathway; 2.20A {Homo sapiens}
Length = 170
Score = 56.2 bits (135), Expect = 2e-09
Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 683 EHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLE 742
++ K+ C IC + + + C H FC C+ ++ + + CP + + ++ L
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG---HKCPVDNEILLENQL- 68
Query: 743 THSNDALQSILSTLF 757
++ + + +L
Sbjct: 69 -FPDNFAKREILSLM 82
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 53.9 bits (130), Expect = 2e-09
Identities = 17/74 (22%), Positives = 38/74 (51%), Gaps = 3/74 (4%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYM-LFD 59
++V ++ SK + + + +S +K +I + P+ + +L+Y G +L D+Y L +
Sbjct: 16 IHVTVKFP--SKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNE 73
Query: 60 YNVNLNDVIQLMIK 73
Y + I + +K
Sbjct: 74 YGITEFSEIVVFLK 87
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 58.6 bits (141), Expect = 3e-09
Identities = 24/128 (18%), Positives = 45/128 (35%), Gaps = 4/128 (3%)
Query: 613 EEAQAAKEASKANLKRKVSSETLGESKVKKSKQ-VYTLPSSVLEHINNDTVHSNVWDEIK 671
+ A A L+ ++ L ++ + ++ Y P ++ + + +
Sbjct: 256 QWAIGYVTADGNILQTIPHNKPLFQALIDGFREGFYLFPDGRNQNPDLTGLCEPTPQDHI 315
Query: 672 ALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPY 731
+ +E + E LC IC E C H C CL + E CP+
Sbjct: 316 KVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEG---QGCPF 372
Query: 732 CRKEMNKS 739
CR E+ +
Sbjct: 373 CRCEIKGT 380
Score = 30.5 bits (68), Expect = 1.9
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
C ICA DK + E C H CL ES + CP C+ +
Sbjct: 335 CKICA---ENDKDVKIEPCGHLMCTSCLTSWQESEGQG----CPFCRCE 376
>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 117
Score = 53.8 bits (129), Expect = 5e-09
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 9/72 (12%)
Query: 682 LEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSC 740
L+ +++ C C ++ +P+ L C H FC +C+ CP C
Sbjct: 16 LDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQD 69
Query: 741 LETHSNDALQSI 752
L N L S+
Sbjct: 70 L--KINRQLDSM 79
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 52.4 bits (126), Expect = 6e-09
Identities = 16/72 (22%), Positives = 34/72 (47%), Gaps = 1/72 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ + +R+ G + V +T ++ +K Q+ V D L ++GK LED+ L +Y
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQT-VAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEY 63
Query: 61 NVNLNDVIQLMI 72
+ + + +
Sbjct: 64 GLKPLSTVFMNL 75
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 52.9 bits (127), Expect = 7e-09
Identities = 9/49 (18%), Positives = 20/49 (40%)
Query: 24 ISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDVIQLMI 72
++ +K + + + + Q + G LEDE L V +++
Sbjct: 40 VAQIKAHVASLEGIAPEDQVVLLAGAPLEDEATLGQCGVEALTTLEVAG 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 = 52.8 bits (126), Expect = 2e-08
Identities = 24/71 (33%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K++I++ +P D+QRL + GKQLED L DY
Sbjct: 1 MQIFVKTLTG-KTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 61 NVNLNDVIQLM 71
N+ + L+
Sbjct: 60 NIQKESTLHLV 70
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 54.0 bits (129), Expect = 2e-08
Identities = 14/62 (22%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M V++++L+G + + L + T + D+K+QI + +D L G + ++ D
Sbjct: 1 MQVQVKTLEG-ETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNTELVTDD 59
Query: 61 NV 62
Sbjct: 60 VT 61
>2k16_A Transcription initiation factor TFIID subunit 3; protein,
alternative splicing, metal-binding, nucleus,
phosphoprotein, transcription regulation; NMR {Mus
musculus} PDB: 2k17_A*
Length = 75
Score = 51.0 bits (122), Expect = 2e-08
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 315 KDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
+ C C +I C++C +YH C+ E WFCP C
Sbjct: 17 QIWICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQ-WFCPKCA 66
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 50.2 bits (120), Expect = 3e-08
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 11/61 (18%)
Query: 686 QEKFLCIICQELVYKPI-------TLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
C IC + + + + +C H FC CL+ + K N+CP CRK++N
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINH 63
Query: 739 S 739
Sbjct: 64 K 64
Score = 31.3 bits (71), Expect = 0.15
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 9/56 (16%)
Query: 319 CSIC----AGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
C IC + +LIV EC H + CL+ L++ CP+C++ +
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRKKINH 63
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 49.9 bits (119), Expect = 3e-08
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 687 EKFLCIICQELVYKPI-------TLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
C IC + + + + +C H FC CL+ + K N+CP CRK++N
Sbjct: 14 GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINH 68
Score = 31.0 bits (70), Expect = 0.15
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 9/52 (17%)
Query: 319 CSIC----AGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKR 366
C IC + +LIV EC H + CL+ L++ CP+C++
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT-----CPTCRK 64
>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 = 52.6 bits (126), Expect = 3e-08
Identities = 12/50 (24%), Positives = 25/50 (50%)
Query: 24 ISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDVIQLMIK 73
++ +K Q+ V D L ++GK LED+ L +Y + + + ++
Sbjct: 104 VAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLR 153
Score = 47.6 bits (113), Expect = 2e-06
Identities = 17/82 (20%), Positives = 32/82 (39%), Gaps = 3/82 (3%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFY--KGKQLEDEYMLF 58
+ ++ L G + LS +S++K QI + V +QRL G L+D L
Sbjct: 3 WDLTVKMLAG-NEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLA 61
Query: 59 DYNVNLNDVIQLMIKADIDKNY 80
+ + L++ +
Sbjct: 62 SQGLGPGSTVLLVVDKSDEPLS 83
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 49.4 bits (118), Expect = 4e-08
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 11/60 (18%)
Query: 687 EKFLCIICQELVYKPI-------TLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKS 739
C IC + + + + +C H FC CL+ + K N+CP CRK++N
Sbjct: 2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINHK 57
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 50.1 bits (120), Expect = 5e-08
Identities = 15/52 (28%), Positives = 33/52 (63%), Gaps = 3/52 (5%)
Query: 685 IQEKFLCIICQELVYKPITLD-CVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
I ++ LC+IC++++ + + C +++C +C++ A +ESD +CP C +
Sbjct: 10 IPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTAL-LESDEH-TCPTCHQN 59
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 51.5 bits (123), Expect = 1e-07
Identities = 19/50 (38%), Positives = 32/50 (64%)
Query: 24 ISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDVIQLMIK 73
I ++K +I++ +P D+QRL + GKQLED L DYN+ + L+++
Sbjct: 128 IENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 177
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 47.0 bits (112), Expect = 4e-07
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 691 CIICQELVY-KPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
C IC E + L C+H FC+ C+ R + +CP C+ +
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLCKVPVES 52
Score = 33.5 bits (77), Expect = 0.024
Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 7/54 (12%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVI 372
C IC P + C H + C+ + P CP CK V+
Sbjct: 8 CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPT-----CPLCKVPVESVV 54
>2ku3_A Bromodomain-containing protein 1; PHD finger, chromatin regulator,
metal-binding, finger, signaling protein; NMR {Homo
sapiens}
Length = 71
Score = 46.8 bits (111), Expect = 5e-07
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 5/53 (9%)
Query: 316 DCGCSICAGKTSPD--KLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKR 366
D CSIC S + ++ C+ C H C P +PE W C C +
Sbjct: 16 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQ-WLCRHCLQ 65
>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 = 52.4 bits (125), Expect = 6e-07
Identities = 94/612 (15%), Positives = 159/612 (25%), Gaps = 222/612 (36%)
Query: 18 LSKRTL-ISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDVIQLMIKADI 76
S R L +S +E+ L VP F+ QL+++ F
Sbjct: 4 YSTRPLTLSH--GSLEHVLLVPTA---SFFIASQLQEQ---F------------------ 37
Query: 77 DKNYQSSESSSKENIQPNGPACKPNINTENASSSGNNTEPE------DFVDLKPADSQYY 130
+ ++ + P T E +V S+
Sbjct: 38 ---NKILPEPTEGFAADDEPT----------------TPAELVGKFLGYVSSLVEPSK-- 76
Query: 131 KVGDYVDAILETEGAWFESQI-----THILVDINKEKPYDEDDLIFKVVH-LKYKDDGSS 184
VG + D +L FE+ H L + + D + K +K
Sbjct: 77 -VGQF-DQVLNLCLTEFENCYLEGNDIHALA---AKLLQENDTTLVKTKELIKNYITARI 131
Query: 185 TMKFDDIRPLPKH----LITEFNENLIGVRVM------GNYNA--EEPRERGYWHDMIIE 232
K RP K L E +++ GN + EE R+ Y
Sbjct: 132 MAK----RPFDKKSNSALFRAVGEG--NAQLVAIFGGQGNTDDYFEELRDL-Y------- 177
Query: 233 KKQGKRLTTELIATVFIGKKGLETRLENCKIKFVK--ELYK-IESPKLLAERTAEDEDHM 289
+ L +LI L + + F + + + +E+P D+D++
Sbjct: 178 -QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS-----NTPDKDYL 231
Query: 290 STEPKT-----LRQIVPECTTCN--DVETKHCKD--CGCSIC-----------AGKTSPD 329
+ P + + Q+ T + G + +
Sbjct: 232 LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES 291
Query: 330 ---------KL---IVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQK 377
+ I C Y P S+P PS D+ E +
Sbjct: 292 FFVSVRKAITVLFFIGV-RCYEAY-------PNTSLP-------PSILEDSLEN---NEG 333
Query: 378 ----------LKDSKKKARMASTNSKSTRDWGKGMACV-GRTK-VCTIVPSDHFGPIPGI 425
L + + + TNS ++ V G V + GP P
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS-------GP-P-- 383
Query: 426 EVGQSYLYRFQASEAGVHRPH---VSGIHGRE----------DVGA-F-SLVLSGGYEDD 470
QS LY + P S I E V + F S +L +
Sbjct: 384 ---QS-LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLI 439
Query: 471 VDD--GDSFLYTGS----------GGRDLSGNKRTSVQSFDQTLTRMNKALARNCNAPID 518
D ++ + G DL R S + + + R
Sbjct: 440 NKDLVKNNVSFNAKDIQIPVYDTFDGSDL----RVLSGSISERIVDC---IIR------- 485
Query: 519 DKRGNEAVDWKK 530
V W+
Sbjct: 486 -----LPVKWET 492
Score = 45.4 bits (107), Expect = 7e-05
Identities = 50/307 (16%), Positives = 93/307 (30%), Gaps = 113/307 (36%)
Query: 24 ISDMKTQIENTLDVPVDKQRLF--YKGKQLEDEYMLFDYNVNLN-DVIQLMIKADIDKNY 80
I D+ N PV+ F KGK++ + Y + ++ + I +I+
Sbjct: 1661 ILDIVI--NN----PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEIN--- 1711
Query: 81 QSSESSSKENIQPNGPACKPNINTENASSSGNNTEPEDFVDLKPADSQYYKVGDYVDAIL 140
E S+ + T+ T+P A+
Sbjct: 1712 ---EHSTS--YTFRSEKGLLSA-TQ-------FTQP---------------------ALT 1737
Query: 141 ETEGAWFESQITHILVDINKEKPYDEDDLIFKVV--H-LKYKDDG--------SSTMKFD 189
E A FE D+ + D H L G + M +
Sbjct: 1738 LMEKAAFE--------DLKSKGLIPADA----TFAGHSL-----GEYAALASLADVMSIE 1780
Query: 190 D------IR------PLPKHLITEFNENLIGV---RVMGNYNAEEPRERGYWHDMIIEKK 234
R +P+ + N +I + RV +++ E + ++E+
Sbjct: 1781 SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY-------VVERV 1833
Query: 235 QGKRLTTEL--IA-------TVFIG--KKGLETRLENCKIKFVKELYKIESPKLLAERTA 283
+ T L I + L+T + N + F+K KI+ +L +
Sbjct: 1834 GKR--TGWLVEIVNYNVENQQYVAAGDLRALDT-VTNV-LNFIKLQ-KIDIIELQKSLSL 1888
Query: 284 ED-EDHM 289
E+ E H+
Sbjct: 1889 EEVEGHL 1895
Score = 33.5 bits (76), Expect = 0.32
Identities = 32/167 (19%), Positives = 50/167 (29%), Gaps = 63/167 (37%)
Query: 6 RSLDGSKNCVLVLSKRTLISDMKTQIENTLD---VPVDKQRLFYKGKQLEDEYMLF---- 58
+SL G L L+ R K + + LD +P +++L + F
Sbjct: 384 QSLYG-----LNLTLR------KAKAPSGLDQSRIPFSERKLKF--------SNRFLPVA 424
Query: 59 -----DYNVNLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPACK-PNINTENASSSGN 112
L L I D+ K N+ N + P +T + S
Sbjct: 425 SPFHSHL---LVPASDL-INKDL----------VKNNVSFNAKDIQIPVYDTFDGS---- 466
Query: 113 NTEPEDFVDLKPADSQYYKVGDYVDAILETEGAW---FESQITHILV 156
DL+ VD I+ W + + THIL
Sbjct: 467 --------DLRVLSGS--ISERIVDCIIRLPVKWETTTQFKATHILD 503
Score = 30.8 bits (69), Expect = 2.5
Identities = 18/123 (14%), Positives = 37/123 (30%), Gaps = 27/123 (21%)
Query: 650 PSSVLE-------HINNDTVHSNVWDEIKALCKEGQKEVLEHIQEKFL------CIICQE 696
P++ E ++++ S V + L L + +L + +
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVL-----NLCLTEFENCYLEGNDIHALAAKL 108
Query: 697 LVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLETHSNDALQSILSTL 756
L TL + + I + P+ +K S L + + L +
Sbjct: 109 LQENDTTLVKTKELI-----KNY-ITARIMAKRPFDKKS--NSALFRAVGEG-NAQLVAI 159
Query: 757 FPG 759
F G
Sbjct: 160 FGG 162
>3ql9_A Transcriptional regulator ATRX; zinc finger, transcription, lysine
trimethylation, protein, histone-binding protein,
transcription-structural complex; HET: M3L; 0.93A {Homo
sapiens} PDB: 3qla_A* 3qlc_A 3qln_A 2jm1_A
Length = 129
Score = 47.9 bits (113), Expect = 7e-07
Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 16/78 (20%)
Query: 300 VPECTTCND-------VETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPL-- 350
V C C D C CA LI C+ C + + C+ L
Sbjct: 34 VLICKNCFKYYMSDDISRDSDGMDEQCRWCAEG---GNLICCDFCHNAFCKKCILRNLGR 90
Query: 351 ----ESVPEDDEWFCPSC 364
+ E+++W+C C
Sbjct: 91 RELSTIMDENNQWYCYIC 108
>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger,
bromodomain, SUMO, acetylation, alternative splicing,
metal-binding, nucleus; NMR {Homo sapiens}
Length = 189
Score = 49.5 bits (117), Expect = 7e-07
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
C +C P L++C +C+ +H+ C P L+ VP ++ W C C
Sbjct: 5 CRVCQ---KPGDLVMCNQCEFCFHLDCHLPALQDVPGEE-WSCSLCH 47
>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 = 48.1 bits (114), Expect = 1e-06
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G + V T I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 77 MQIFVKTLTGKTITLEVEPSDT-IENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 135
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 136 NIQKESTLHLVLR 148
Score = 45.4 bits (107), Expect = 8e-06
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 1 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 59
Query: 61 NV 62
N+
Sbjct: 60 NI 61
>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 = 50.2 bits (119), Expect = 1e-06
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 234 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 292
Query: 61 NVNLNDVIQLM 71
N+ + L+
Sbjct: 293 NIQKESTLHLV 303
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo sapiens}
Length = 172
Score = 48.5 bits (115), Expect = 1e-06
Identities = 24/73 (32%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G + V T I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 97 MQIFVKTLTGKTITLEVEPSDT-IENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 155
Query: 61 NVNLNDVIQLMIK 73
N+ + L+++
Sbjct: 156 NIQKESTLHLVLR 168
Score = 42.7 bits (100), Expect = 9e-05
Identities = 23/62 (37%), Positives = 37/62 (59%), Gaps = 1/62 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
M + +++L G K L + I ++K +I++ +P D+QRL + GKQLED L DY
Sbjct: 21 MQIFVKTLTG-KTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDY 79
Query: 61 NV 62
N+
Sbjct: 80 NI 81
>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 = 46.3 bits (110), Expect = 1e-06
Identities = 12/73 (16%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNV 62
V ++ + + + + S++K +I + +P Q++ YKG + ++ L + V
Sbjct: 18 VDLKIIWNKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKGL-VPEDKTLREIKV 76
Query: 63 NLNDVIQLMIKAD 75
I ++
Sbjct: 77 TSGAKIMVVGSTI 89
>2l43_A N-teminal domain from histone H3.3, linker, PHD1 from
bromodomain-containing protein...; PHD finger, histone
CODE, transcription; NMR {Homo sapiens}
Length = 88
Score = 45.8 bits (108), Expect = 2e-06
Identities = 16/52 (30%), Positives = 21/52 (40%), Gaps = 5/52 (9%)
Query: 316 DCGCSICAGKTSPD--KLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
D CSIC S + ++ C+ C H C P +PE W C C
Sbjct: 25 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVP--YIPEGQ-WLCRHCL 73
>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 = 45.7 bits (108), Expect = 3e-06
Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 24 ISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYM-LFDYNVNLNDVIQLMIKADIDKNYQS 82
+S+ + E VP ++ ++ Y + L D++ L Y + D++ L+ K ++
Sbjct: 34 LSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCSLGSYGLKDGDMVVLLQKDNVGLRTPG 93
Query: 83 SESS 86
S
Sbjct: 94 RTPS 97
>2lbm_A Transcriptional regulator ATRX; metal binding protein-structural
protein compl; HET: M3L; NMR {Homo sapiens} PDB: 2ld1_A
Length = 142
Score = 46.7 bits (110), Expect = 3e-06
Identities = 17/78 (21%), Positives = 26/78 (33%), Gaps = 16/78 (20%)
Query: 300 VPECTTCND-------VETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPL-- 350
V C C D C CA LI C+ C + + C+ L
Sbjct: 40 VLICKNCFKYYMSDDISRDSDGMDEQCRWCAEG---GNLICCDFCHNAFCKKCILRNLGR 96
Query: 351 ----ESVPEDDEWFCPSC 364
+ E+++W+C C
Sbjct: 97 KELSTIMDENNQWYCYIC 114
>3kqi_A GRC5, PHD finger protein 2; metal-binding, zinc-finger,
histone-binding, NUC protein; HET: M3L; 1.78A {Homo
sapiens}
Length = 75
Score = 44.5 bits (105), Expect = 3e-06
Identities = 11/51 (21%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 321 ICAGKTSPDKLIV-CEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
+C + ++ C+ C+ ++H C+ E P+ D + CP+C++ +
Sbjct: 14 VCRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGK 64
>1wep_A PHF8; structural genomics, PHD domain, riken structural
genomics/proteomics initiative, RSGI, DNA binding
protein; NMR {Mus musculus} SCOP: g.50.1.2
Length = 79
Score = 44.9 bits (106), Expect = 3e-06
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 321 ICAGKTSPDKLIV-CEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTS 369
+C + + ++ C CQ ++H C+ E+ + D + CP C+
Sbjct: 16 LCRQPYNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG 65
>1we9_A PHD finger family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 64
Score = 43.7 bits (103), Expect = 5e-06
Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 319 CSICAGKTSPDKL-IVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKR 366
C C + D+ I C+ C+ ++H C+K ++ CPSC
Sbjct: 9 CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSN 57
>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4),
metal binding protein; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 65
Score = 43.0 bits (101), Expect = 8e-06
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 8/58 (13%)
Query: 687 EKFLCIICQELVYKPITLD-----CVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKS 739
+ C C+ Y+ +L C HT C C+ F + +CP C + KS
Sbjct: 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGA---GNCPECGTPLRKS 56
>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 = 48.7 bits (115), Expect = 8e-06
Identities = 46/370 (12%), Positives = 106/370 (28%), Gaps = 115/370 (31%)
Query: 12 KNCVLVL-----SK---------RTLISDMKTQIENTLDVP-------VDKQRLFYKGKQ 50
+NC+LVL +K + L++ Q+ + L +
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 51 LEDEYMLFDY-NVNLND--------------VIQLMIKADID--KNYQSSESSSKENIQP 93
+L Y + D +I I+ + N++ I
Sbjct: 304 KS---LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII- 359
Query: 94 NGPACKPNINTENASSSGNNTEPEDFVD-LKPADSQYYKVGDYVD-AILETEGAWFESQI 151
E ++ L+PA+ + + ++ A + +
Sbjct: 360 -----------------------ESSLNVLEPAEYRKM----FDRLSVFP-PSAHIPTIL 391
Query: 152 THILVDINKEKPYDEDDLIFKVVH---LKYKDDGSST-----------MKFDDIRPLPKH 197
++ + + ++ +H L K ST +K ++ L +
Sbjct: 392 LSLIWF---DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 198 LITEFNENLIGVRVMGNYNAEEPRERGYWHDMI----IEKKQGKRLTTELIATVFIGKKG 253
++ +N + + + P Y++ I + +R+ L VF
Sbjct: 449 IVDHYNIP----KTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM--TLFRMVF----- 497
Query: 254 LETR-LENCKIKFVKELYKIESP--------KLLAERTAEDEDHMSTEPKTLRQIVPECT 304
L+ R LE KI+ + K +++ + +P+
Sbjct: 498 LDFRFLEQ-KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE 556
Query: 305 TCNDVETKHC 314
N + +K+
Sbjct: 557 E-NLICSKYT 565
Score = 39.1 bits (90), Expect = 0.007
Identities = 54/402 (13%), Positives = 109/402 (27%), Gaps = 121/402 (30%)
Query: 2 YVKIRSLDGS-KNC--VLVLSKRTLISDMKTQI-------ENTLDVPVDK-QRLFYKGKQ 50
V I + GS K + V + M +I N+ + ++ Q+L Y+
Sbjct: 152 NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 51 LEDEYMLFDYNV--NLNDVIQLMIKADIDKNYQSS-----ESSSKENIQPNGPACKPNIN 103
N+ ++ + + + K Y++ + + +CK +
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271
Query: 104 TENASSSGNNTEPEDFVDLKPADSQYYKVGDYVDAILETEGAWFESQITHILVDINKEKP 163
T V D++ A + THI +D +
Sbjct: 272 TRFKQ-----------------------VTDFLSA----------ATTTHISLD-HHSMT 297
Query: 164 YDED---DLIFKVVHLKYKDDGSSTMKFDDIRPLPKHLITEF---------------NEN 205
D L+ K + + +D + P +I E +
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLT---TNPRRLSIIAESIRDGLATWDNWKHVNCDK 354
Query: 206 LIGVRVMGNYNAEEPRE-RGYWHDMIIEKKQGKRLTTELIATVFIGKKGLETRLENCKIK 264
L + N EP E R + + + + T L++ ++ + +
Sbjct: 355 LTTIIESS-LNVLEPAEYRKMFDRLSVFPPSAH-IPTILLSLIWFDVIKSDVMV------ 406
Query: 265 FVKELYKIESPKLLAERTAEDEDHMSTEPKTLRQIVP-----ECTTCNDVETKHCKDCGC 319
V +L+K L E+ +PK +P + H
Sbjct: 407 VVNKLHK----YSLVEK----------QPKESTISIPSIYLELKVKLENEYALH------ 446
Query: 320 SICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFC 361
++ HY P D++F
Sbjct: 447 ---------RSIV-----DHYNIPKTFDSDDLIPPYLDQYFY 474
Score = 37.9 bits (87), Expect = 0.014
Identities = 87/650 (13%), Positives = 174/650 (26%), Gaps = 191/650 (29%)
Query: 5 IRSLDGSKNCVLVL-SKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD-YNV 62
+ + D C V ++++S K +I++ + LF
Sbjct: 30 VDNFD----CKDVQDMPKSILS--KEEIDHIIMSKDAVSGT----------LRLFWTLLS 73
Query: 63 NLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPACKPNINTENASSSGNNTEPEDFVDL 122
+++Q ++ + NY+ S I TE S + D
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSP---------------IKTEQRQPSMMTRMYIEQRDR 118
Query: 123 KPADSQYYKVGDY----VDAILETEGAWFESQ-----ITH--------ILV-------DI 158
D+Q + Y + L+ A E + + + +
Sbjct: 119 LYNDNQVFA--KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 159 NKEKPY-----------DEDDLIFKVVHLKYKDDGSSTMKFDDIRPLPKHLITEFNENLI 207
+ + + ++ + L Y+ D + T + D + I L
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK-LRIHSIQAEL- 234
Query: 208 GVRVMGNYNAEEPRERGY------WHDMIIEK--KQGKRL-TT--ELIATVFIGKKGLET 256
R++ +P E + K L TT + +
Sbjct: 235 -RRLL----KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 257 RLENCKIKFVKELYKIESPKLLAERTAEDEDHMSTE-----PKTLRQIVPECTTCNDVET 311
L++ + + E LL + + E P+ L I + + T
Sbjct: 290 SLDHHSMTLTPD----EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIR--DGLAT 343
Query: 312 ----KH--CKDCGCSICAGKTSPDKLIVCEECQHYYH------------------IWCLK 347
KH C I ++S + L E + + IW
Sbjct: 344 WDNWKHVNCDKLTTII---ESSLNVL-EPAEYRKMFDRLSVFPPSAHIPTILLSLIWF-- 397
Query: 348 PPLESVPEDDEWFCPSC------KRDTSEVIA--PGQKLKDSKKKARMASTNSKSTRDWG 399
+ + D ++ E P L+ K + +
Sbjct: 398 ---DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS------ 448
Query: 400 KGMACVGRTKVCTIVPSDHFGPIPGIEVGQSYLYRFQASEAGVHRPHVSGIHGREDVGAF 459
V + SD P Y Y H H+ I E + F
Sbjct: 449 ----IVDHYNIPKTFDSDDLIPPY----LDQYFYSHIG-----H--HLKNIEHPERMTLF 493
Query: 460 SLVLSGGYEDDVDDGDSFL-----YTGSGGRDLSGNKRTSVQSFDQTLTRMNKALARNCN 514
+V + D FL + + + N S+ + Q L + N
Sbjct: 494 RMV----FLD-----FRFLEQKIRHDST-----AWNASGSILNTLQQLKFYKPYICDND- 538
Query: 515 APIDDKRGNEAVDWKKGKPVRVMRNFHGAKHS---KYAPKEGNRYDGIYK 561
P ++ N +D+ ++ N +K++ + A + I++
Sbjct: 539 -PKYERLVNAILDFLP----KIEENLICSKYTDLLRIALM--AEDEAIFE 581
Score = 32.9 bits (74), Expect = 0.53
Identities = 58/339 (17%), Positives = 95/339 (28%), Gaps = 94/339 (27%)
Query: 487 LSGNKRTSVQSFDQTLTRMN-----KALARNCNAPID---------DKRGNEAVDWKKG- 531
L + VQ F + + R+N + P D+ N+ + K
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN 130
Query: 532 ----KPVRVMRN-FHGAKHSKYAPKEGNRYDGIYK------VVKYYPVKGSSDF-IVW-- 577
+P +R + +K +G G K V Y V+ DF I W
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVL--GSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 578 ---------------RFHLQ-------RDDEAPAPW--TEEGKKRIKDLGLQMIYPEGY- 612
+ Q R D + + ++ L Y
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 613 --EEAQAAKEASKANLKRKVSSETLGESKVKKSKQVYTLPSSVLEHINND-TVHSNVWDE 669
Q AK + NL K L + T V + ++ T H ++
Sbjct: 249 VLLNVQNAKAWNAFNLSCK----IL----------LTTRFKQVTDFLSAATTTHISLDHH 294
Query: 670 IKALCKEGQKEVLEHIQEKFLCIICQEL---VYK--PITLDCVHTFCHDCLKRA--FK-I 721
L + K +L K+L Q+L V P L + D L +K +
Sbjct: 295 SMTLTPDEVKSLL----LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Query: 722 ESDACNSCPYCRKEMNKSCLETHSNDALQSILSTL--FP 758
D + +S L + + L FP
Sbjct: 351 NCDKLT-------TIIESSLNVLEPAEYRKMFDRLSVFP 382
>3pur_A Lysine-specific demethylase 7 homolog;
oxidoreductase-oxidoreductase inhibitor complex; HET:
2HG; 2.10A {Caenorhabditis elegans} PDB: 3n9l_A 3n9m_A*
3n9o_A* 3n9p_A* 3n9q_A* 3n9n_A* 3puq_A*
Length = 528
Score = 48.2 bits (113), Expect = 9e-06
Identities = 24/160 (15%), Positives = 41/160 (25%), Gaps = 4/160 (2%)
Query: 281 RTAEDEDHMSTEPKTLRQIVPECTTCNDVETKHCKDCGCSICAGKTSPDKL-IVCEECQH 339
E + T + + K D I C+ CQ
Sbjct: 8 TPKESDRCGGCGKFTHEDDLIALEEEKK-KEKEKPLMSKKKSHHHKKNDFQWIGCDSCQT 66
Query: 340 YYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQKLKDSKKKARMASTNSKSTRDWG 399
+YH C +++FCP C T + K+ + + + G
Sbjct: 67 WYHFLCSGLEQFEYYLYEKFFCPKCVPHTGH--SIRYKVVAPHRYRWYSPNEKHLGIEVG 124
Query: 400 KGMACVGRTKVCTIVPSDHFGPIPGIEVGQSYLYRFQASE 439
VPS + +E G + F+
Sbjct: 125 SKTWIEDFITRENTVPSPTDDEVCIVEDGYEFRREFEKLG 164
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 42.2 bits (99), Expect = 2e-05
Identities = 11/62 (17%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 675 KEGQKEVLEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCR 733
G++ + ++ C IC L+ + + C C+ + F+ ++ CP+C
Sbjct: 5 SSGRETYPDAVKI---CNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAE--PRCPHCN 59
Query: 734 KE 735
Sbjct: 60 DY 61
Score = 31.8 bits (72), Expect = 0.099
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 5/49 (10%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
C+IC + CE C H+ C+ +S E CP C
Sbjct: 18 CNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPR---CPHCNDY 61
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 42.8 bits (100), Expect = 5e-05
Identities = 17/66 (25%), Positives = 27/66 (40%), Gaps = 11/66 (16%)
Query: 686 QEKFLCIICQELVYK-------PITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
C IC + + ++ +C H FC CL+ + K N+CP CRK++N
Sbjct: 5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNA----NTCPTCRKKINH 60
Query: 739 SCLETH 744
Sbjct: 61 KRYHPI 66
Score = 36.7 bits (84), Expect = 0.006
Identities = 19/91 (20%), Positives = 32/91 (35%), Gaps = 17/91 (18%)
Query: 654 LEHINNDTVHSNVWDEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHD 713
+ H ++ +C +G E+ + I+ E C H FC
Sbjct: 58 INHKRYHPIYIGSGTVSCPICMDGYSEI----VQNGRLIVSTE---------CGHVFCSQ 104
Query: 714 CLKRAFKIESDACNSCPYCRKEMNKSCLETH 744
CL+ + N+CP CRK++N
Sbjct: 105 CLRDSL----KNANTCPTCRKKINHKRYHPI 131
Score = 33.6 bits (76), Expect = 0.072
Identities = 15/70 (21%), Positives = 23/70 (32%), Gaps = 9/70 (12%)
Query: 301 PECTTCNDVETKHCKDCGCSICA----GKTSPDKLIVCEECQHYYHIWCLKPPLESVPED 356
C IC +LIV EC H + CL+ L++
Sbjct: 57 KINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT- 115
Query: 357 DEWFCPSCKR 366
CP+C++
Sbjct: 116 ----CPTCRK 121
Score = 27.8 bits (61), Expect = 6.3
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 4/53 (7%)
Query: 319 CSIC----AGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
C IC + +LIV EC H + CL+ L++ +
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 62
>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger,
alpha-helical bundle, dimethyl-lysine, bromodom
chromatin regulator, metal-binding, nucleus; HET: MLY;
1.45A {Homo sapiens} PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A*
3uv2_A* 3qzt_A* 3qzs_A* 2fui_A 2fuu_A*
Length = 174
Score = 43.3 bits (102), Expect = 6e-05
Identities = 13/68 (19%), Positives = 24/68 (35%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQKL 378
C + I C+ CQ++YH C+ DE+ CP C+ +
Sbjct: 11 CICKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQSTEDAMTVLTPLT 70
Query: 379 KDSKKKAR 386
+ + +
Sbjct: 71 EKDYEGLK 78
>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 = 41.4 bits (97), Expect = 6e-05
Identities = 11/69 (15%), Positives = 25/69 (36%), Gaps = 2/69 (2%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNV 62
V ++ V + + K Q+ V +Q++ KG L+D+ + +
Sbjct: 10 VTVKWGKEKFEGVELNTDEP-PMVFKAQLFALTGVQPARQKVMVKGGTLKDDD-WGNIKM 67
Query: 63 NLNDVIQLM 71
+ +M
Sbjct: 68 KNGMTVLMM 76
>1wgd_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; ENDPLASMIC reticulum
stress, UBL domain; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 93
Score = 41.1 bits (96), Expect = 9e-05
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 5/79 (6%)
Query: 1 MYVKIRSLDGSKNCVLV-LSKRTLISDMKTQIENTL--DVPVDKQRLFYKGKQLEDEYML 57
+ + ++S + + + + + +K + + QRL Y GK L D L
Sbjct: 8 VTLLVKSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCL 67
Query: 58 FDYNVNLND--VIQLMIKA 74
D V+ L+
Sbjct: 68 RDLLPKQEKRHVLHLVCNV 86
>2dzm_A FAS-associated factor 1; ubiquitin-like domain, HFAF1, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 100
Score = 41.2 bits (96), Expect = 1e-04
Identities = 19/79 (24%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 12 KNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLF-YKGKQLEDEYMLFDYNVNLNDVIQL 70
+N +VL + ++K +EN L +PV K L +K +ED +L ++ N+ + +
Sbjct: 19 RNVDVVLEDTCTVGEIKQILENELQIPVSKMLLKGWKTGDVEDSTVLKSLHLPKNNSLYV 78
Query: 71 MIKADIDKNYQSSESSSKE 89
+ D+ SS + + +
Sbjct: 79 L-TPDLPPPSSSSHAGALQ 96
>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase
complex, ring zinc-finger, UBL conjugation pathway;
2.10A {Homo sapiens} PDB: 2yhn_A
Length = 79
Score = 40.1 bits (94), Expect = 1e-04
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 9/62 (14%)
Query: 678 QKEVLEHIQEKFLCIICQELVYKPITLDCVHTF-CHDCLKRAFKIESDACNSCPYCRKEM 736
+E L ++E LC++C E C HT C C + SCP CR +
Sbjct: 8 LQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVCCESC--------AAQLQSCPVCRSRV 59
Query: 737 NK 738
Sbjct: 60 EH 61
>1v5t_A 8430435I17RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.15.1.1 PDB: 2kx3_A
Length = 90
Score = 40.3 bits (94), Expect = 1e-04
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 15 VLVLSKRTLISDMKTQIENTLDVPVDKQRLFY---KGKQLEDEYMLFDYNVNLNDVIQLM 71
V LS+ + D+K ++ V ++Q+L KGK E++ L + N I +M
Sbjct: 21 VTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLGALKLKPNTKIMMM 80
>3a1b_A DNA (cytosine-5)-methyltransferase 3A, histone H3; zinc-finger,
histone binding, chromosomal protein, DNA damag repair,
DNA-binding, methylation; HET: DNA; 2.29A {Homo sapiens}
PDB: 3a1a_A*
Length = 159
Score = 41.7 bits (97), Expect = 2e-04
Identities = 15/80 (18%), Positives = 31/80 (38%), Gaps = 17/80 (21%)
Query: 299 IVPECTTCND--VETKHCKD-----CGCSICAGKTSPDKLIVCE--ECQHYYHIWCLK-- 347
+ C C + +E + D C+IC G ++++C C + + C+
Sbjct: 55 VGGMCQNCKNCFLECAYQYDDDGYQSYCTICCG---GREVLMCGNNNCCRCFCVECVDLL 111
Query: 348 ---PPLESVPEDDEWFCPSC 364
++ ++D W C C
Sbjct: 112 VGPGAAQAAIKEDPWNCYMC 131
>2kdb_A Homocysteine-responsive endoplasmic reticulum- resident
ubiquitin-like domain member...; UBL domain, membrane,
polymorphism, transmembrane; NMR {Homo sapiens}
Length = 99
Score = 39.9 bits (93), Expect = 2e-04
Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 3/67 (4%)
Query: 3 VKIRSLDGSKNCVLV-LSKRTLISDMKTQIENTL--DVPVDKQRLFYKGKQLEDEYMLFD 59
+ I++ + + + + +KT + N QRL Y G+ L D L D
Sbjct: 26 LIIKAPNQKYSDQTISCFLNWTVGKLKTHLSNVYPSKPLTKDQRLVYSGRLLPDHLQLKD 85
Query: 60 YNVNLND 66
++
Sbjct: 86 ILRKQDE 92
>1wee_A PHD finger family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 72
Score = 39.1 bits (91), Expect = 3e-04
Identities = 6/39 (15%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 332 IVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
+ C+ C ++H C+ + ++ C C +
Sbjct: 32 LACDGCGVWHHTRCIGIN-NADALPSKFLCFRCIELSGP 69
>2fnj_B Transcription elongation factor B polypeptide 2; beta-sandwich,
lectin-like, SPRY, protein transport/signaling protein
complex; 1.80A {Mus musculus} SCOP: d.15.1.1 PDB:
1lm8_B 1lqb_A 1vcb_A 2c9w_B 2izv_B 2jz3_B 2xai_C 3dcg_A
3zrc_A* 3zrf_A
Length = 118
Score = 40.4 bits (94), Expect = 3e-04
Identities = 14/64 (21%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRT-LISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD 59
+++ IR K + +K + + ++K +E L P ++QRL+ + L+D L +
Sbjct: 3 VFLMIRR---HKTTIFTDAKESSTVFELKRIVEGILKRPPEEQRLYKDDQLLDDGKTLGE 59
Query: 60 YNVN 63
Sbjct: 60 CGFT 63
>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger,
bromodomain, H4K16 acetylation, breast C
transcription-protein binding complex; HET: ALY; 1.70A
{Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A
Length = 184
Score = 41.5 bits (97), Expect = 3e-04
Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 4/84 (4%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQKL 378
C++C + +L+ CE+C +H+ C P L + P + W C C+ + +
Sbjct: 7 CAVCQ---NGGELLCCEKCPKVFHLSCHVPTLTNFPSGE-WICTFCRDLSKPEVEYDCDA 62
Query: 379 KDSKKKARMASTNSKSTRDWGKGM 402
+ + K T +
Sbjct: 63 PSHNSEKKKTEGLVKLTPIDKRKC 86
>2xb1_A Pygopus homolog 2, B-cell CLL/lymphoma 9-like Pro; fusion protein,
signal transduction, transcription, metal BI WNT
proteins; 1.90A {Homo sapiens}
Length = 105
Score = 39.9 bits (92), Expect = 3e-04
Identities = 16/81 (19%), Positives = 26/81 (32%), Gaps = 7/81 (8%)
Query: 317 CGCSICAGKTSPD-KLIVCE-ECQHYYHIWCLK-----PPLESVPEDDEWFCPSCKRDTS 369
C C + + D I+CE CQ ++H C L + W C C +
Sbjct: 4 YPCGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLKTKE 63
Query: 370 EVIAPGQKLKDSKKKARMAST 390
+ +A+T
Sbjct: 64 GSGSGSGSQFVYVFTTHLANT 84
>1x1m_A Ubiquitin-like protein SB132; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Mus musculus} SCOP: d.15.1.1
Length = 107
Score = 39.4 bits (91), Expect = 4e-04
Identities = 14/54 (25%), Positives = 25/54 (46%), Gaps = 3/54 (5%)
Query: 24 ISDMKTQIENTLDVPV---DKQRLFYKGKQLEDEYMLFDYNVNLNDVIQLMIKA 74
IS +K I L V + L Y G++L+D+ L Y + + ++ K+
Sbjct: 47 ISFLKQLIAGKLQESVPDPELIDLIYCGRKLKDDQTLDFYGIQPGSTVHVLRKS 100
>3o70_A PHD finger protein 13; PHF13, structural genomics consortium, SGC,
structural genom type zinc finger, protein binding, zinc
ION binding; 1.85A {Homo sapiens}
Length = 68
Score = 38.3 bits (89), Expect = 4e-04
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 321 ICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
C + +I C EC + H+ C K +VP + + C C+
Sbjct: 23 FCMKPFAGRPMIECNECHTWIHLSCAKIRKSNVP--EVFVCQKCR 65
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 38.5 bits (89), Expect = 5e-04
Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 7/67 (10%)
Query: 686 QEKFLCIICQELV----YKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCL 741
++ C +C E + C + C C R I +D CP CRK +
Sbjct: 9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHR---IRTDENGLCPACRKPYPEDPA 65
Query: 742 ETHSNDA 748
Sbjct: 66 VYKPLSQ 72
Score = 30.8 bits (69), Expect = 0.29
Identities = 10/53 (18%), Positives = 19/53 (35%), Gaps = 5/53 (9%)
Query: 319 CSICAGKTSPDKLIVCE-ECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
C +C D + C + +C + D+ CP+C++ E
Sbjct: 14 CPLCMEPLEIDDINFFPCTCGYQICRFC----WHRIRTDENGLCPACRKPYPE 62
>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold,
ubiquitination, ligase; 2.71A {Homo sapiens} PDB:
2lgy_A
Length = 105
Score = 39.2 bits (91), Expect = 5e-04
Identities = 9/67 (13%), Positives = 22/67 (32%), Gaps = 1/67 (1%)
Query: 1 MYVKIRSLDGSKNCV-LVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFD 59
++V + + L + ++ +K + P Q+ + D+ L
Sbjct: 25 LWVSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVIGQRLARDQETLHS 84
Query: 60 YNVNLND 66
+ V N
Sbjct: 85 HGVRQNG 91
>3o7a_A PHD finger protein 13 variant; PHF13, zinc finger, PHD domain,
nuclear protein, structural structural genomics
consortium, SGC, protein binding; HET: M3L; 1.67A {Homo
sapiens}
Length = 52
Score = 37.7 bits (88), Expect = 5e-04
Identities = 12/45 (26%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 321 ICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCK 365
C + +I C EC + H+ C K +VP + + C C+
Sbjct: 8 FCMKPFAGRPMIECNECHTWIHLSCAKIRKSNVP--EVFVCQKCR 50
>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch
signaling, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.44.1.1
Length = 114
Score = 39.4 bits (91), Expect = 5e-04
Identities = 18/76 (23%), Positives = 26/76 (34%), Gaps = 15/76 (19%)
Query: 310 ETKHCKDCGCSIC---------------AGKTSPDKLIVCEECQHYYHIWCLKPPLESVP 354
E K + C IC + P + +C H +H+ CL +
Sbjct: 19 ELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGN 78
Query: 355 EDDEWFCPSCKRDTSE 370
+D CPSCK E
Sbjct: 79 KDGSLQCPSCKTIYGE 94
Score = 35.6 bits (81), Expect = 0.012
Identities = 14/63 (22%), Positives = 18/63 (28%), Gaps = 19/63 (30%)
Query: 691 CIICQELVYKPIT------------------LDCVHTFCHDCLKRAFKIES-DACNSCPY 731
CIIC E + C H F CL + + D CP
Sbjct: 28 CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPS 87
Query: 732 CRK 734
C+
Sbjct: 88 CKT 90
>2pv0_B DNA (cytosine-5)-methyltransferase 3-like; DNMT3L, unmethylated
H3K4, de novo DNA methylation, transferase regulator;
HET: DNA; 3.30A {Homo sapiens} PDB: 2pvc_B*
Length = 386
Score = 41.9 bits (97), Expect = 5e-04
Identities = 31/195 (15%), Positives = 51/195 (26%), Gaps = 25/195 (12%)
Query: 303 CTTCND-------VETKHCKDCGCSICAGKTSPDKLIVCE--ECQHYYHIWCLK-----P 348
C C D + CSIC + L++C +C Y C+
Sbjct: 73 CAPCKDKFLDALFLYDDDGYQSYCSICCSG---ETLLICGNPDCTRCYCFECVDSLVGPG 129
Query: 349 PLESVPEDDEWFCPSCKRDTSEVIAPGQKLKDSKKKARMASTNSKSTRDWGKGMACVGRT 408
V W C C + + ++ S+ KA + + +
Sbjct: 130 TSGKVHAMSNWVCYLCLPSSRSGLLQRRRKWRSQLKAFYDRESENPLEMFETVPVWRRQP 189
Query: 409 KVCTIVPSDHFGPIPGIEVGQSYLYRFQASEAGVHRPHVSGIHGR--EDVGAFSLVLSGG 466
+ D I +L H V+ + E+ G F LV
Sbjct: 190 VRVLSLFED----IKKELTSLGFLESGSDPGQLKHVVDVTDTVRKDVEEWGPFDLVYGAT 245
Query: 467 --YEDDVDDGDSFLY 479
D S+
Sbjct: 246 PPLGHTCDRPPSWYL 260
>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 = 8e-04
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 22 TLISDMKTQIENTLDVPVDKQRLFYKGKQL-EDEYMLFDYNVNLNDVIQLM 71
++ D+ +E + VP Q+L +KGK L E E L + + L+
Sbjct: 32 PVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETPLSALGIQDGCRVMLI 82
>1wem_A Death associated transcription factor 1; structural genomics, PHD
domain, death inducer- obliterator 1(DIO-1); NMR {Mus
musculus} SCOP: g.50.1.2
Length = 76
Score = 37.2 bits (86), Expect = 0.001
Identities = 10/54 (18%), Positives = 22/54 (40%), Gaps = 4/54 (7%)
Query: 321 ICAGKTSPDKLIVCEECQHYYHIWCLK----PPLESVPEDDEWFCPSCKRDTSE 370
IC + +I C+ C+ ++H C+ +++ CP+C +
Sbjct: 20 ICRQPHNNRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSGP 73
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 37.1 bits (86), Expect = 0.001
Identities = 16/61 (26%), Positives = 26/61 (42%), Gaps = 9/61 (14%)
Query: 679 KEVLEHIQEKFLCIICQELVYKPITLDCVHTF-CHDCLKRAFKIESDACNSCPYCRKEMN 737
+E L +QE+ LC IC + + + C H C C ++A + CP C +
Sbjct: 16 EEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQC--------AEAVDKCPMCYTVIT 67
Query: 738 K 738
Sbjct: 68 F 68
>2vpb_A Hpygo1, pygopus homolog 1; gene regulation, WNT signaling pathway,
WNT signaling complex, chromosomal rearrangement,
signaling protein; 1.59A {Homo sapiens} PDB: 2vpd_A
2yyr_A* 2dx8_A* 2vp7_A 2vpg_A* 2vpe_A*
Length = 65
Score = 36.6 bits (84), Expect = 0.002
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 7/55 (12%)
Query: 317 CGCSICAGK-TSPDKLIVCE-ECQHYYHIWC--LKPP---LESVPEDDEWFCPSC 364
C IC + I+CE CQ ++H C + L + W C +C
Sbjct: 9 YPCGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 63
>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 = 37.3 bits (86), Expect = 0.002
Identities = 14/74 (18%), Positives = 33/74 (44%), Gaps = 5/74 (6%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYM-LFD 59
+ V+++ L+ ++ + + T + +K++ + +L Y+G+ L+D L
Sbjct: 8 INVRLKFLNDTEELAVARPEDT-VGTLKSKY---FPGQESQMKLIYQGRLLQDPARTLSS 63
Query: 60 YNVNLNDVIQLMIK 73
N+ N VI
Sbjct: 64 LNITNNCVIHCHRS 77
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 40.2 bits (93), Expect = 0.002
Identities = 14/62 (22%), Positives = 22/62 (35%), Gaps = 11/62 (17%)
Query: 319 CSIC-----AGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF------CPSCKRD 367
C+IC G P +C H CL+ +++ + + CP CK
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370
Query: 368 TS 369
S
Sbjct: 371 LS 372
Score = 36.4 bits (83), Expect = 0.032
Identities = 16/81 (19%), Positives = 27/81 (33%), Gaps = 15/81 (18%)
Query: 674 CKEGQKEVLEHIQEKFLCIIC--------QELVYKPITLDCVHTFCHDCLKRAFKIESDA 725
++ E E+ C IC + + CV CL+ FK D
Sbjct: 294 DWSDGPKLDEEDNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDG 353
Query: 726 CNS-------CPYCRKEMNKS 739
CP+C+ +++ S
Sbjct: 354 KTFLEVSFGQCPFCKAKLSTS 374
>3c6w_A P28ING5, inhibitor of growth protein 5; chromatin, PHD, ING,
epigenetics, alternative splicing, metal-binding,
phosphoprotein, zinc; HET: M3L; 1.75A {Homo sapiens}
PDB: 2pnx_A*
Length = 59
Score = 36.0 bits (83), Expect = 0.003
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 319 CSICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
+C + S ++I C+ ++H C+ L + P+ WFCP C ++
Sbjct: 11 YCLC-HQVSYGEMIGCDNPDCPIEWFHFACVD--LTTKPKGK-WFCPRCVQE 58
>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain,
leukemia, apoptosis, chromati regulator, DNA-binding,
isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A*
3lqj_A* 2kyu_A
Length = 183
Score = 38.8 bits (89), Expect = 0.003
Identities = 14/90 (15%), Positives = 28/90 (31%), Gaps = 10/90 (11%)
Query: 319 CSICAGKTSPD----KLIVCEECQHYYHIWCLKPP------LESVPEDDEWFCPSCKRDT 368
C +C D K++ C +C + H C L ++PE + C +C
Sbjct: 5 CPLCDKCYDDDDYESKMMQCGKCDRWVHSKCENLSDEMYEILSNLPESVAYTCVNCTERH 64
Query: 369 SEVIAPGQKLKDSKKKARMASTNSKSTRDW 398
+ + ++ + S
Sbjct: 65 PAEWRLALEKELQISLKQVLTALLNSRTTS 94
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 36.4 bits (84), Expect = 0.003
Identities = 20/72 (27%), Positives = 26/72 (36%), Gaps = 22/72 (30%)
Query: 308 DVETKHCKDC------GCSIC-AGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
DVE C C C C A D ++V EC H +H C+ W
Sbjct: 12 DVECDTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCM----------SLWV 61
Query: 361 -----CPSCKRD 367
CP C++D
Sbjct: 62 KQNNRCPLCQQD 73
Score = 34.9 bits (80), Expect = 0.012
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 8/50 (16%)
Query: 690 LCIICQELV----YKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKE 735
C+ CQ + +C H+F + C+ K N CP C+++
Sbjct: 28 ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVK----QNNRCPLCQQD 73
>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein 4,
UIP4, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 94
Score = 36.8 bits (85), Expect = 0.003
Identities = 11/61 (18%), Positives = 24/61 (39%), Gaps = 3/61 (4%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF---CPSCKRDTSEVIAPG 375
C +C G+ +++ +CQ + CLK +E + ++ CP +
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67
Query: 376 Q 376
+
Sbjct: 68 E 68
Score = 31.8 bits (72), Expect = 0.18
Identities = 12/54 (22%), Positives = 16/54 (29%), Gaps = 7/54 (12%)
Query: 686 QEKFLCIICQELVYK---PITLDCVHTFCHDCLKRAFKI---ESDACN-SCPYC 732
C +C C FC CLK+ ++ E SCP
Sbjct: 3 SGSSGCKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 38.9 bits (90), Expect = 0.003
Identities = 12/77 (15%), Positives = 26/77 (33%), Gaps = 3/77 (3%)
Query: 660 DTVHSNVWDEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPIT-LDCVHTFCHDCLKRA 718
+A+ + Q + +C IC L+ + + C C+ +
Sbjct: 152 IEKEGEFTLHGRAILEMEQYIRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKY 211
Query: 719 FKIESDACNSCPYCRKE 735
F+ ++ CP+C
Sbjct: 212 FQSNAE--PRCPHCNDY 226
Score = 33.6 bits (76), Expect = 0.20
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 5/49 (10%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
C+IC + CE C H+ C+ +S E CP C
Sbjct: 183 CNICHSLLIQGQ--SCETCGIRMHLPCVAKYFQSNAEPR---CPHCNDY 226
>1x4i_A Inhibitor of growth protein 3; structural genomics, PHD domain,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 70
Score = 35.6 bits (82), Expect = 0.004
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 15/71 (21%)
Query: 319 CSICAGKTSPDKLIVCEECQ---HYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPG 375
IC + S +++ C+ ++H C+ L P+ W+CP C
Sbjct: 8 YCIC-NQVSYGEMVGCDNQDCPIEWFHYGCVG--LTEAPKGK-WYCPQCT--------AA 55
Query: 376 QKLKDSKKKAR 386
K + S+ K+
Sbjct: 56 MKRRGSRHKSG 66
>2kgg_A Histone demethylase jarid1A; PHD finger, histone modification,
leukemia, alternative splicing, chromatin regulator,
developmental protein; NMR {Homo sapiens} PDB: 2kgi_A*
3gl6_A*
Length = 52
Score = 34.9 bits (80), Expect = 0.005
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 317 CGCSICAGKTSPDKL-IVCE-ECQHYYHIWCLKPPLESVPEDDEWFCPSC 364
C C + C+ C ++H C+ E + E++++ C +C
Sbjct: 3 CAAQNCQRPCKDKVDWVQCDGGCDEWFHQVCVGVSPE-MAENEDYICINC 51
>3kv5_D JMJC domain-containing histone demethylation protein 1D;
epigenetics, histone CODE, jumonji lysine demethylase,
metal-binding, zinc, zinc-finger; HET: OGA; 2.39A {Homo
sapiens} PDB: 3kv6_A*
Length = 488
Score = 38.9 bits (89), Expect = 0.006
Identities = 10/67 (14%), Positives = 21/67 (31%), Gaps = 1/67 (1%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKL-IVCEECQHYYHIWCLKPPLESVPEDDEW 359
+C ++ I C+ C+ ++H C+ + D +
Sbjct: 21 VSVAAPGRASAPPPPPPVYCVCRQPYDVNRFMIECDICKDWFHGSCVGVEEHHAVDIDLY 80
Query: 360 FCPSCKR 366
CP+C
Sbjct: 81 HCPNCAV 87
>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1,
ring domain, zinc-binding domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 68
Score = 35.2 bits (81), Expect = 0.006
Identities = 15/60 (25%), Positives = 20/60 (33%), Gaps = 9/60 (15%)
Query: 676 EGQKEVLEHIQEKFLCIICQELVYKPITLDCVHT-FCHDCLKRAFKIESDACNSCPYCRK 734
G V + C++CQ + L C HT C C CP CR+
Sbjct: 3 SGSSGVEPSEENSKDCVVCQNGTVNWVLLPCRHTCLCDGC--------VKYFQQCPMCRQ 54
>2vnf_A ING 4, P29ING4, inhibitor of growth protein 4; acetylation,
alternative splicing, anti-oncogene, cell cycle, coiled
C nucleus, zinc, zinc-finger, ING4; HET: M3L; 1.76A
{Homo sapiens} SCOP: g.50.1.2 PDB: 2k1j_A 2jmq_A 2qic_A*
Length = 60
Score = 34.8 bits (80), Expect = 0.007
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 319 CSICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
+C + S ++I C+ ++H C+ L + P +WFCP C ++
Sbjct: 12 YCLC-HQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKPRG-KWFCPRCSQE 59
>1wen_A Inhibitor of growth family, member 4; ING1-like protein; structural
genomics, PHD domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: g.50.1.2 PDB: 1wes_A
Length = 71
Score = 34.9 bits (80), Expect = 0.007
Identities = 13/53 (24%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 321 ICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
+C + S ++I C+ ++H C+ L + P +WFCP C +++
Sbjct: 20 LC-HQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKP-RGKWFCPRCSQESGP 68
>2g6q_A Inhibitor of growth protein 2; protein-peptide complex, gene
regulation, apoptosis; HET: M3L; 2.00A {Mus musculus}
Length = 62
Score = 34.5 bits (79), Expect = 0.008
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 319 CSICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRD 367
+C + S ++I C+ ++H C+ L P+ W+CP C+ D
Sbjct: 13 YCLC-NQVSYGEMIGCDNEQCPIEWFHFSCVS--LTYKPKGK-WYCPKCRGD 60
>2daf_A FLJ35834 protein; hypothetical protein FLJ35834, ubiquitin-like
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 35.8 bits (82), Expect = 0.010
Identities = 15/70 (21%), Positives = 33/70 (47%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNV 62
VK+ + + V+ T++ +K + L +P ++ Y GK L++ L + V
Sbjct: 18 VKVVLIPVGQEIVIPFKVDTILKYLKDHFSHLLGIPHSVLQIRYSGKILKNNETLVQHGV 77
Query: 63 NLNDVIQLMI 72
+++Q+ I
Sbjct: 78 KPQEIVQVEI 87
>2d9t_A Tudor domain-containing protein 3; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: b.34.9.1
Length = 78
Score = 34.8 bits (80), Expect = 0.011
Identities = 8/78 (10%), Positives = 25/78 (32%), Gaps = 12/78 (15%)
Query: 124 PADSQYYKVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDGS 183
+ + +K GD A+ + ++ +++ + + V Y +
Sbjct: 4 GSSGKVWKPGDECFALYWEDNKFYRAEVEAL----------HSSGMTAVVKFTDYGN--Y 51
Query: 184 STMKFDDIRPLPKHLITE 201
+ +I+P+
Sbjct: 52 EEVLLSNIKPVQTEAWVR 69
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 34.4 bits (79), Expect = 0.011
Identities = 15/67 (22%), Positives = 25/67 (37%), Gaps = 9/67 (13%)
Query: 677 GQKEVLEHIQEKFLCIICQELVYKP----ITLDCVHTFCHDCLKRAFKIESDACNSCPYC 732
G ++ + LC +C E +KP C H F CL + ++ CP C
Sbjct: 4 GSSGKVKELNLHELCAVCLE-DFKPRDELGICPCKHAFHRKCLIKWLEV----RKVCPLC 58
Query: 733 RKEMNKS 739
+ +
Sbjct: 59 NMPVLQL 65
Score = 29.3 bits (66), Expect = 0.67
Identities = 15/55 (27%), Positives = 22/55 (40%), Gaps = 17/55 (30%)
Query: 319 CSICAGKTSP-DKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CPSCKRD 367
C++C P D+L +C C+H +H CL +W CP C
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCL----------IKWLEVRKVCPLCNMP 61
>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 = 35.7 bits (82), Expect = 0.013
Identities = 13/96 (13%), Positives = 32/96 (33%), Gaps = 7/96 (7%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYK-------GKQLEDEY 55
++I + ++D+K ++E + VD R+ G+ +
Sbjct: 9 LEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGAK 68
Query: 56 MLFDYNVNLNDVIQLMIKADIDKNYQSSESSSKENI 91
L D V I + +++++ K +
Sbjct: 69 SLKDLGVRDGYRIHAVDVTGGNEDFKDESMVEKYEM 104
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain,
TGF-beta, epigenetics, methylation, K9ME3, K14AC,
transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB:
3u5m_A* 3u5o_A* 3u5p_A*
Length = 207
Score = 36.8 bits (84), Expect = 0.014
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 319 CSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTS 369
C++C + L+ CE+C +H+ C P L S P +W C C+
Sbjct: 10 CAVCQ---NGGDLLCCEKCPKVFHLTCHVPTLLSFP-SGDWICTFCRDIGK 56
>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
g.44.1.3
Length = 93
Score = 34.8 bits (79), Expect = 0.016
Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 5/54 (9%)
Query: 686 QEKFLCIICQELVYKPITLDCV----HTFCHDCLKRAFKIESDACN-SCPYCRK 734
C IC E + + C H FC C + + K + CP K
Sbjct: 13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSGEK 66
Score = 27.1 bits (59), Expect = 6.8
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 319 CSICAGKTSPDKLIVCEECQ-HYYHIWCLKPPLESVPEDDEWFCPSCKR 366
C+IC + + C H + C + +++ E +CPS ++
Sbjct: 18 CTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSGEK 66
>2ect_A Ring finger protein 126; metal binding protein, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus}
Length = 78
Score = 33.9 bits (78), Expect = 0.017
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 9/58 (15%)
Query: 683 EHIQEKFLCIICQELVYKP----ITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEM 736
EH+ C +C+E Y L C H F C+ + +SCP CRK +
Sbjct: 10 EHVGSGLECPVCKE-DYALGESVRQLPCNHLFHDSCIVPWLEQH----DSCPVCRKSL 62
Score = 26.6 bits (59), Expect = 7.3
Identities = 15/67 (22%), Positives = 23/67 (34%), Gaps = 19/67 (28%)
Query: 319 CSICAGKTSPDKLIVCEE-----CQHYYHIWCLKPPLESVPEDDEWFCPSCKR----DTS 369
C +C + + E C H +H C+ P LE CP C++ +
Sbjct: 18 CPVCK-----EDYALGESVRQLPCNHLFHDSCIVPWLEQHDS-----CPVCRKSLTGQNT 67
Query: 370 EVIAPGQ 376
PG
Sbjct: 68 ATNPPGL 74
>3kv4_A PHD finger protein 8; epigenetics, histone CODE, covalent histone
modifications, jumonji demethylase, mental retardation,
metal-binding, zinc; HET: M3L MLY OGA; 2.19A {Homo
sapiens}
Length = 447
Score = 37.2 bits (85), Expect = 0.018
Identities = 13/101 (12%), Positives = 31/101 (30%), Gaps = 1/101 (0%)
Query: 319 CSICAGKTSPDKL-IVCEECQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVIAPGQK 377
+C + I C+ CQ ++H C+ E + D + CP+C+ I ++
Sbjct: 7 YCLCRLPYDVTRFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEVLHGPSIMKKRR 66
Query: 378 LKDSKKKARMASTNSKSTRDWGKGMACVGRTKVCTIVPSDH 418
+ + + + ++
Sbjct: 67 GSSKGHDTHKGKPVKTGSPTFVRELRSRTFDSSDEVILKPT 107
>1weu_A Inhibitor of growth family, member 4; structural genomics, PHD
domain, ING1-like protein, DNA binding protein, NPPSFA;
NMR {Mus musculus} SCOP: g.50.1.2
Length = 91
Score = 34.3 bits (78), Expect = 0.019
Identities = 14/57 (24%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 317 CGCSICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSE 370
C C + S ++I C+ ++H C+ L + P +WFCP C +++
Sbjct: 39 CLC----HQVSYGEMIGCDNPDCSIEWFHFACVG--LTTKP-RGKWFCPRCSQESGP 88
>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1;
RCHY1, ring domain, zinc-binding domain, structural
genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A
Length = 55
Score = 33.0 bits (76), Expect = 0.020
Identities = 12/48 (25%), Positives = 15/48 (31%), Gaps = 8/48 (16%)
Query: 691 CIICQELVY---KPIT-LDCVHTFCHDCLKRAFKIESDACNSCPYCRK 734
C IC E ++ L C H C + K CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLK----EGYRCPLCSG 51
Score = 32.2 bits (74), Expect = 0.050
Identities = 15/61 (24%), Positives = 18/61 (29%), Gaps = 18/61 (29%)
Query: 316 DCGCSICAG--KTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CPSCKRDT 368
GC IC TS + C H H C +E CP C +
Sbjct: 5 SSGCPICLEDIHTS-RVVAHVLPCGHLLHRTCY----------EEMLKEGYRCPLCSGPS 53
Query: 369 S 369
S
Sbjct: 54 S 54
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 34.4 bits (78), Expect = 0.020
Identities = 15/60 (25%), Positives = 23/60 (38%), Gaps = 6/60 (10%)
Query: 691 CIICQ-ELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLETHSNDAL 749
C C + + C H FC+DC A E CP C + + +E + +L
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDC---AILHEKKGDKMCPGCSDPVQR--IEQCTRGSL 58
>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical
protein, structural genomics, NPPSFA; NMR {Arabidopsis
thaliana} SCOP: d.15.1.1
Length = 107
Score = 34.4 bits (78), Expect = 0.028
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLF 45
+++RS DG + V V +S +KT I++ L +P+ Q L
Sbjct: 10 LRVRSRDGLER-VSVDGPHITVSQLKTLIQDQLQIPIHNQTLS 51
>3gdc_A Multicopper oxidase; beta sandwich, plasmid, oxidoreductase; 1.80A
{Arthrobacter SP}
Length = 288
Score = 36.3 bits (84), Expect = 0.029
Identities = 18/79 (22%), Positives = 27/79 (34%), Gaps = 20/79 (25%)
Query: 423 PGIEVGQSYLYRFQASEAGVH--RPHVSG--------------IHGREDVGA----FSLV 462
I GQS+ Y F A+ G H H S + +E +V
Sbjct: 109 GSIAPGQSFTYEFDATPFGTHLYHCHQSPLAPHIAKGLYGGFIVEPKEGRPPADDEMVMV 168
Query: 463 LSGGYEDDVDDGDSFLYTG 481
++G D DD + + G
Sbjct: 169 MNGYNTDGGDDNEFYSVNG 187
>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 = 34.2 bits (77), Expect = 0.058
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 25/54 (46%)
Query: 232 EKKQGKRLTTELIATVFIGKKGLETRLENCKIKFVKELYKIES-PKLLAERTAE 284
EK+ K+ L+ L +LY +S P L + T E
Sbjct: 18 EKQALKK---------------LQASL---------KLYADDSAPALAIKATME 47
Score = 30.3 bits (67), Expect = 1.3
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 12/40 (30%)
Query: 40 DKQRLFYKGKQLEDEYMLF--DYNVNLNDVIQLMIKADID 77
+KQ L K+L+ L+ D L IKA ++
Sbjct: 18 EKQAL----KKLQASLKLYADD------SAPALAIKATME 47
>2gow_A HCG-1 protein, ubiquitin-like protein 3; BC059385, structural
genomics, protein structure initiative, PSI; NMR {Homo
sapiens}
Length = 125
Score = 33.5 bits (76), Expect = 0.073
Identities = 14/106 (13%), Positives = 34/106 (32%), Gaps = 11/106 (10%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENT--LDVP------VDKQRLFYKGKQLE 52
+ +++ + G + S SD+ + + +D + RL Y+G+ L
Sbjct: 18 INLRLILVSGKT-KEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLH 76
Query: 53 DEYMLFDYNVNLNDVIQLMIKADIDKNYQSSESSSKENIQPNGPAC 98
L + + + + S + N + G +
Sbjct: 77 GNVTLGALKLPFGKTTVMHLV--ARETLPEPNSQGQRNREKTGESN 120
>1wew_A DNA-binding family protein; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, DNA
binding protein; NMR {Arabidopsis thaliana} SCOP:
g.50.1.2
Length = 78
Score = 32.4 bits (73), Expect = 0.075
Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 6/51 (11%)
Query: 321 ICAGKTSPDKLIVCEE--CQHYYHIWCL----KPPLESVPEDDEWFCPSCK 365
+C D +I CE+ C + H+ C+ KP + P + ++C C+
Sbjct: 20 VCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYCEICR 70
>2rsd_A E3 SUMO-protein ligase SIZ1; E3 SUMO ligase, plant homeodomain
(PHD), histone binding; NMR {Oryza sativa japonica
group}
Length = 68
Score = 31.9 bits (72), Expect = 0.080
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 321 ICAGKTSPDKLIVCEE--CQHYYHIWCL---KPPLESVPEDDEWFCPSCK 365
IC+ D +I CE+ CQ + H+ C+ P ES ++C C+
Sbjct: 14 ICSSTMVNDSMIQCEDQRCQVWQHLNCVLIPDKPGESAEVPPVFYCELCR 63
>1kbv_A ANIA, major outer membrane protein PAN 1; ANIA[NO2-],
oxidoreductase; 1.95A {Neisseria gonorrhoeae} SCOP:
b.6.1.3 b.6.1.3 PDB: 1kbw_A
Length = 327
Score = 34.8 bits (80), Expect = 0.090
Identities = 23/121 (19%), Positives = 44/121 (36%), Gaps = 4/121 (3%)
Query: 420 GPIPGIEVGQSYLYRFQASEAGVH--RPHVSGIHGREDVGAFSLVLSGGYEDDVDDGDSF 477
G++ + F+A + G++ V+ + G + L+L ++ + D
Sbjct: 108 AAATFTAPGRTSTFSFKALQPGLYIYHCAVAPVGMHIANGMYGLILVEP-KEGLPKVDKE 166
Query: 478 LYTGSGGRDLSGNKRTS-VQSFDQTLTRMNKALARNCNAPIDDKRGNEAVDWKKGKPVRV 536
Y G G K +Q FD + N + G+ A+ K G+ VR+
Sbjct: 167 FYIVQGDFYTKGKKGAQGLQPFDMDKAVAEQPEYVVFNGHVGALTGDNALKAKAGETVRM 226
Query: 537 M 537
Sbjct: 227 Y 227
>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene, phosphorylation,
alternative splicing, HOST-virus interaction, UBL
conjugation pathway, zinc-finger, polymorphism; HET:
FLC; 2.20A {Homo sapiens} PDB: 2vjf_A* 2hdp_A
Length = 64
Score = 31.3 bits (71), Expect = 0.12
Identities = 14/55 (25%), Positives = 19/55 (34%), Gaps = 13/55 (23%)
Query: 690 LCIICQELVYKPIT-----LDCVHTF-CHDCLKRAFKIESDACNSCPYCRKEMNK 738
C+ICQ +P H C C K+ K CP CR+ +
Sbjct: 10 PCVICQG---RPKNGCIVHGKTGHLMACFTCAKKLKK----RNKPCPVCRQPIQM 57
>3pnw_C Tudor domain-containing protein 3; FAB, structural genomics
consortium, antibody, SGC, protein immune system
complex; 2.05A {Homo sapiens}
Length = 77
Score = 31.7 bits (72), Expect = 0.13
Identities = 9/72 (12%), Positives = 25/72 (34%), Gaps = 12/72 (16%)
Query: 130 YKVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDGSSTMKFD 189
+K GD A+ + ++ +++ + + V + Y + +
Sbjct: 18 WKPGDECFALYWEDNKFYRAEVEAL----------HSSGMTAVVKFIDYGN--YEEVLLS 65
Query: 190 DIRPLPKHLITE 201
+I+P+ E
Sbjct: 66 NIKPIQTEAWEE 77
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 33.5 bits (76), Expect = 0.13
Identities = 11/68 (16%), Positives = 17/68 (25%), Gaps = 28/68 (41%)
Query: 278 LAERTAEDEDHMSTEPKTLRQIVPECTTCNDVETKHCKDCGCSICAGKTSPDKLI----- 332
+ R + D+ P N C +C P K++
Sbjct: 1 MMTRESIDKRAGRRGP-------------NLNIVLTCPECK-------VYPPKIVERFSE 40
Query: 333 ---VCEEC 337
VC C
Sbjct: 41 GDVVCALC 48
Score = 28.1 bits (62), Expect = 10.0
Identities = 11/76 (14%), Positives = 20/76 (26%), Gaps = 32/76 (42%)
Query: 351 ESVPE-DDEWFCPSCKRDTSEVIAPGQKLKDSKKKARMASTNSKSTRDWGKG-MACVGRT 408
P + CP CK +++ + +G + C
Sbjct: 13 RRGPNLNIVLTCPECKVYPPKIV-----------------------ERFSEGDVVC---- 45
Query: 409 KVCTIVPSDHF---GP 421
+C +V SD
Sbjct: 46 ALCGLVLSDKLVDTRS 61
>3shq_A UBLCP1; phosphatase, hydrolase; 1.96A {Drosophila melanogaster}
Length = 320
Score = 34.0 bits (77), Expect = 0.17
Identities = 15/126 (11%), Positives = 38/126 (30%), Gaps = 3/126 (2%)
Query: 24 ISDMKTQIENTLDVPVDKQRLFY---KGKQLEDEYMLFDYNVNLNDVIQLMIKADIDKNY 80
+ ++ +I V ++Q+L KGK D + + N + ++ + D
Sbjct: 27 VEVLRHEIFRKTQVRPERQKLLNLKYKGKTAADNVKISALELKPNFKLMMVGSTEADIED 86
Query: 81 QSSESSSKENIQPNGPACKPNINTENASSSGNNTEPEDFVDLKPADSQYYKVGDYVDAIL 140
S + + + + S+ D K + + G + +
Sbjct: 87 ACSLPDNIGEVVDDFDDADEREESVAHSAVYLAKVQRRVRDYKIKELAPPREGKKLLVLD 146
Query: 141 ETEGAW 146
+
Sbjct: 147 IDYTLF 152
>3plu_A Ubiquitin-like modifier HUB1; ubiquitin-like, HUB-1, SNU66,
peptide binding protein; 1.40A {Saccharomyces
cerevisiae} PDB: 3plv_A 1m94_A 1p0r_A
Length = 93
Score = 31.9 bits (72), Expect = 0.17
Identities = 17/70 (24%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDY 60
+ V + G K V L + + + D K + + +K L G L+D L DY
Sbjct: 22 IEVVVNDRLGKKVRVKCLGEDS-VGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHISLEDY 80
Query: 61 NVNLNDVIQL 70
V+ ++L
Sbjct: 81 EVHDQTNLEL 90
>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A
Length = 968
Score = 34.0 bits (77), Expect = 0.20
Identities = 18/129 (13%), Positives = 43/129 (33%), Gaps = 11/129 (8%)
Query: 624 ANLKRKVSSETLGESKVKKSKQVYTLPSSVLEHINNDTVHSNVWDEIKALCKEGQKEVLE 683
A +R + + ++ +E + N +N +E + +E E +
Sbjct: 831 AKDERSFNRNLFVRAVDILGRKTGLASPEFIEKLLN---FANKAEEQRKADEEEDLEYGD 887
Query: 684 HIQEKFLCIICQELVYKPITLDC-VHTFCHDCLKRAFKIESDACNSCPYCRKEMNKSCLE 742
E FL + ++ P+ L +K + ++ P+ R + +
Sbjct: 888 VPDE-FLDPLMYTIMKDPVILPASKMNIDRSTIKAHLL----SDSTDPFNRMPLKLEDVT 942
Query: 743 THSNDALQS 751
N+ L+
Sbjct: 943 --PNEELRQ 949
>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring,
ATP-binding, chromosomal protein, coiled coil, DNA
damage; 2.31A {Saccharomyces cerevisiae}
Length = 267
Score = 33.4 bits (75), Expect = 0.21
Identities = 11/65 (16%), Positives = 23/65 (35%), Gaps = 5/65 (7%)
Query: 681 VLEHIQEKFLCIICQELVYKPIT-LDCVHTFCHDCLKRAFKIESDACNSCP--YCRKEMN 737
+E + + C I + P+ C H F D ++ ++ CP C + ++
Sbjct: 174 QIEGGKIELTCPITCKPYEAPLISRKCNHVFDRDGIQNY--LQGYTTRDCPQAACSQVVS 231
Query: 738 KSCLE 742
Sbjct: 232 MRDFV 236
>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast,
protein binding; NMR {Saccharomyces cerevisiae} PDB:
2jmj_A*
Length = 90
Score = 31.3 bits (70), Expect = 0.23
Identities = 13/74 (17%), Positives = 28/74 (37%), Gaps = 12/74 (16%)
Query: 316 DCGCSICAGKTSPDKLIVCEE---CQHYYHIWCLKPPLESVPEDDEWFCPSCKRDTSEVI 372
+ C S ++ C+ ++H C+ L+ P+ W+C ++
Sbjct: 25 EEVYCFC-RNVSYGPMVACDNPACPFEWFHYGCVG--LKQAPKGK-WYCSKDCKEI---- 76
Query: 373 APGQKLKDSKKKAR 386
Q+ K ++K R
Sbjct: 77 -ANQRSKSKRQKRR 89
>4a4f_A SurviVal of motor neuron-related-splicing factor; RNA binding
protein; HET: 2MR; NMR {Homo sapiens} PDB: 4a4h_A*
Length = 64
Score = 30.5 bits (69), Expect = 0.26
Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 12/67 (17%)
Query: 130 YKVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDGSSTMKFD 189
+KVGD A+ +G +E++I I DE++ + Y + +
Sbjct: 9 WKVGDKCMAVWSEDGQCYEAEIEEI----------DEENGTAAITFAGYGN--AEVTPLL 56
Query: 190 DIRPLPK 196
+++P+ +
Sbjct: 57 NLKPVEE 63
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.8 bits (74), Expect = 0.26
Identities = 12/84 (14%), Positives = 31/84 (36%), Gaps = 11/84 (13%)
Query: 581 LQRDDEAPAPWTEEGKKRIKDLGLQMIYPEGYEEAQAAKEASKANLKRKVSS--ETLGES 638
L ++ E+ W EE +KR+++L ++ ++ + K+ + + E
Sbjct: 80 LTQEPESIRKWREEQRKRLQELD---------AASKVMEQEWREKAKKDLEEWNQRQSEQ 130
Query: 639 KVKKSKQVYTLPSSVLEHINNDTV 662
K + + + D +
Sbjct: 131 VEKNKINNRIADKAFYQQPDADII 154
>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative
splicing, HOST-virus interaction, UBL conjugation
pathway, zinc-finger, polymorphism; HET: FLC; 2.20A
{Homo sapiens} PDB: 2vjf_B*
Length = 63
Score = 30.2 bits (68), Expect = 0.27
Identities = 14/56 (25%), Positives = 23/56 (41%), Gaps = 15/56 (26%)
Query: 690 LCIICQE------LVYKPITLDCVHTF-CHDCLKRAFKIESDACNSCPYCRKEMNK 738
C +C++ +++ H C C +R K A SCP C+KE+
Sbjct: 9 PCSLCEKRPRDGNIIHGR----TGHLVTCFHCARRLKK----AGASCPICKKEIQL 56
>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG, structural
genomics, PSI-2, protein struc initiative; NMR {Homo
sapiens}
Length = 91
Score = 31.2 bits (71), Expect = 0.27
Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 9/50 (18%)
Query: 691 CIICQELVYKP----ITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEM 736
C IC Y L C H F C+ + +CP CR
Sbjct: 43 CPICCS-EYVKGDVATELPCHHYFHKPCVSIWLQKS----GTCPVCRCMF 87
Score = 27.7 bits (62), Expect = 4.6
Identities = 12/59 (20%), Positives = 18/59 (30%), Gaps = 25/59 (42%)
Query: 319 CSICAGKTSPDKLIVCEE-----CQHYYHIWCLKPPLESVPEDDEWF-----CPSCKRD 367
C IC + + + C HY+H C+ W CP C+
Sbjct: 43 CPICC-----SEYVKGDVATELPCHHYFHKPCV----------SIWLQKSGTCPVCRCM 86
>3s6w_A Tudor domain-containing protein 3; methylated arginine recognize,
ISO-propanol, transcri; 1.78A {Homo sapiens} PDB:
3pmt_A*
Length = 54
Score = 30.0 bits (68), Expect = 0.28
Identities = 8/65 (12%), Positives = 24/65 (36%), Gaps = 12/65 (18%)
Query: 130 YKVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDGSSTMKFD 189
+K GD A+ + ++ +++ + + V + Y + +
Sbjct: 2 WKPGDECFALYWEDNKFYRAEVEAL----------HSSGMTAVVKFIDYGN--YEEVLLS 49
Query: 190 DIRPL 194
+I+P+
Sbjct: 50 NIKPI 54
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 30.4 bits (69), Expect = 0.31
Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 15/63 (23%)
Query: 310 ETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CPSC 364
+ C +C +L+ C H +H C+ D+W CP C
Sbjct: 17 NNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCV----------DKWLKANRTCPIC 66
Query: 365 KRD 367
+ D
Sbjct: 67 RAD 69
>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA,
apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase,
IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB:
1qbh_A 2l9m_A 3eb5_A 3eb6_A
Length = 345
Score = 33.0 bits (73), Expect = 0.33
Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 9/62 (14%)
Query: 674 CKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVH-TFCHDCLKRAFKIESDACNSCPYC 732
+E L +QE+ C +C + + + C H C +C + + CP C
Sbjct: 281 SGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQEC--------APSLRKCPIC 332
Query: 733 RK 734
R
Sbjct: 333 RG 334
>3gj7_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.93A {Rattus norvegicus} PDB:
2k0c_A 3ch5_B* 3gj6_B*
Length = 98
Score = 31.0 bits (69), Expect = 0.37
Identities = 9/66 (13%), Positives = 16/66 (24%), Gaps = 2/66 (3%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDE-- 358
C N V C C + K + + + + +
Sbjct: 13 DTCLLQNKVTDNKCIACQAAKLPLKETAKQTGIGTPSKSDKPASTSGTGFGDKFKPAIGT 72
Query: 359 WFCPSC 364
W C +C
Sbjct: 73 WDCDTC 78
>3iz5_l 60S ribosomal protein L37 (L37E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_l 3izc_l 3izs_l 3o58_d 3o5h_d 3u5e_j 3u5i_j 1s1i_Y
3jyw_Y
Length = 94
Score = 30.3 bits (68), Expect = 0.59
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 708 HTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
HT C C +R+F ++ C+SC Y + K
Sbjct: 16 HTLCVRCGRRSFHLQKSTCSSCGYPAARIRK 46
>1wgh_A Ubiquitin-like 3, HCG-1 protein; ubiquitin-like fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 116
Score = 30.4 bits (68), Expect = 0.66
Identities = 17/99 (17%), Positives = 34/99 (34%), Gaps = 12/99 (12%)
Query: 1 MYVKIRSLDGSKNCVLVLSKRTLISDMKTQI--------ENTLDVPVDKQRLFYKGKQLE 52
+ +++ + G K + S SD+ + E + RL Y+G+ L
Sbjct: 17 INLRLILVSG-KTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPNILRLIYQGRFLH 75
Query: 53 DEYMLFDYNVNLND--VIQLMIKADI-DKNYQSSESSSK 88
L + V+ L+ + + + N Q S
Sbjct: 76 GNVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRSGPS 114
>3gpi_A NAD-dependent epimerase/dehydratase; structural genomics, unknown
function, PSI-2, protein structure initiative; 1.44A
{Methylobacillus flagellatus KT}
Length = 286
Score = 32.0 bits (73), Expect = 0.66
Identities = 20/80 (25%), Positives = 28/80 (35%), Gaps = 12/80 (15%)
Query: 551 KEGNRYDGIYKVVKYYPVKGSSDFIVW---RFHLQRDDEAPAPWTEEGKK----RIKDLG 603
+ + +Y V P+ D + W R + A P KK R+ G
Sbjct: 201 RSHAVPERLYIVTDNQPLP-VHDLLRWLADRQGIAYPAGATPPVQG-NKKLSNARLLASG 258
Query: 604 LQMIYP---EGYEEAQAAKE 620
Q+IYP GY AA
Sbjct: 259 YQLIYPDYVSGYGALLAAMR 278
>2zwn_A Two-domain type laccase; muticopper oxidase, oxidoreductase; 1.70A
{Metagenomes}
Length = 339
Score = 32.0 bits (73), Expect = 0.67
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 12/41 (29%)
Query: 423 PGIEVGQSYLYRFQASEAGV---HRPHVS--------GIHG 452
IE G SY Y+F+A G H HV+ G+ G
Sbjct: 81 QPIEAGDSYTYKFKADRIGTLWYH-CHVNVNEHVGVRGMWG 120
>3tm8_A BD1817, uncharacterized protein; HD-GYP, phosphodiesterase, unknown
function, hydrolase,signa protein; 1.28A {Bdellovibrio
bacteriovorus} PDB: 3tmb_A 3tmc_A 3tmd_A
Length = 328
Score = 32.1 bits (73), Expect = 0.68
Identities = 13/95 (13%), Positives = 37/95 (38%), Gaps = 2/95 (2%)
Query: 592 TEEGKKRIKDLGLQMIYPEGYEEAQAAKEASKANLKRKVSSETLGESKVKKSKQVYTLPS 651
E KR+KD L+ +Y +E + + + N++ T + + ++ +
Sbjct: 60 EGERLKRLKDKKLRKMYILT-DEENSYRTYLQKNIETAYDDTTGKDIQ-TRADIIQGSQQ 117
Query: 652 SVLEHINNDTVHSNVWDEIKALCKEGQKEVLEHIQ 686
+ E + + + ++ K + ++ + Q
Sbjct: 118 NNAEEVFENPENVESYNYCKDAAGKYVNFIMSNAQ 152
>1kol_A Formaldehyde dehydrogenase; oxidoreductase; HET: NAD; 1.65A
{Pseudomonas putida} SCOP: b.35.1.2 c.2.1.1
Length = 398
Score = 31.9 bits (73), Expect = 0.72
Identities = 9/37 (24%), Positives = 13/37 (35%), Gaps = 6/37 (16%)
Query: 725 ACNSCPYCRKEMNKSCLETHSNDALQSILSTLFPGYS 761
AC C C++ CL + A + GY
Sbjct: 96 ACGRCRSCKEMHTGVCLTVNPARA-----GGAY-GYV 126
>4a18_A RPL37, ribosomal protein L37; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_A 4a1b_A
4a1d_A
Length = 94
Score = 29.9 bits (67), Expect = 0.80
Identities = 9/31 (29%), Positives = 14/31 (45%)
Query: 708 HTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
HT C C K + + C +C Y +M +
Sbjct: 16 HTLCRRCGKATYHKQKLRCAACGYPDAKMRR 46
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 30.2 bits (67), Expect = 0.88
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 6/71 (8%)
Query: 665 NVWDEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESD 724
++ + A+C+ ++ Q +E C H F C+ R K
Sbjct: 34 DIVVDNCAICRNHIMDLCIECQANQASATSEECTV--AWGVCNHAFHFHCISRWLK---- 87
Query: 725 ACNSCPYCRKE 735
CP +E
Sbjct: 88 TRQVCPLDNRE 98
>2zkr_2 60S ribosomal protein L37E; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris} SCOP: i.1.1.1
Length = 97
Score = 29.6 bits (66), Expect = 1.0
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 708 HTFCHDCLKRAFKIESDACNSCPYCRKEMNK 738
HT C C +A+ ++ C C Y K K
Sbjct: 16 HTLCRRCGSKAYHLQKSTCGKCGYPAKRKRK 46
>3g5w_A Multicopper oxidase type 1; two domain, laccase, nitrifier, metal B
protein; 1.90A {Nitrosomonas europaea}
Length = 318
Score = 31.2 bits (71), Expect = 1.0
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 12/41 (29%)
Query: 423 PGIEVGQSYLYRFQASEAGV---HRPHVS--------GIHG 452
IE G ++ Y+F+A AG H HV+ G+ G
Sbjct: 80 HAIEPGDTFTYKFKAEPAGTMWYH-CHVNVNEHVTMRGMWG 119
>1uh6_A Ubiquitin-like 5; beta-grAsp fold, structural genomics, riken
structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Mus musculus} SCOP: d.15.1.1
Length = 100
Score = 29.7 bits (66), Expect = 1.1
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 1/61 (1%)
Query: 10 GSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNVNLNDVIQ 69
G K V + T I D+K I +K L +D L DY ++ ++
Sbjct: 38 GKKVRVKCNTDDT-IGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHVSLGDYEIHDGMNLE 96
Query: 70 L 70
L
Sbjct: 97 L 97
>3gj8_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc
finger, acetylation, cytoplasm, GTP-binding, HOST-virus
interaction; HET: GDP; 1.82A {Rattus norvegicus} PDB:
3gj4_B*
Length = 92
Score = 29.1 bits (64), Expect = 1.3
Identities = 10/64 (15%), Positives = 12/64 (18%), Gaps = 4/64 (6%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
P C N E C C K + + W
Sbjct: 12 PVCCVSNKAEDSRCVSCTSE----KPGLVSASSSNSVPVSLPSGGCLGLDKFKKPEGSWD 67
Query: 361 CPSC 364
C C
Sbjct: 68 CEVC 71
>2dph_A Formaldehyde dismutase; dismutation of aldehydes, oxidoreductase;
HET: NAD; 2.27A {Pseudomonas putida}
Length = 398
Score = 31.1 bits (71), Expect = 1.4
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 725 ACNSCPYCRKEMNKSCLETHSN 746
AC C C++ + C N
Sbjct: 95 ACGRCRNCKEARSDVCENNLVN 116
>1vq8_1 50S ribosomal protein L37E; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: g.41.8.2 PDB: 1vq4_1*
1vq5_1* 1vq6_1* 1vq7_1* 1s72_1* 1vq9_1* 1vqk_1* 1vql_1*
1vqm_1* 1vqn_1* 1vqo_1* 1vqp_1* 1yhq_1* 1yi2_1* 1yij_1*
1yit_1* 1yj9_1* 1yjn_1* 1yjw_1* 2otj_1* ...
Length = 57
Score = 28.1 bits (63), Expect = 1.4
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 708 HTFCHDCLKRAFKIESDACNSCPYCR 733
HT C C ++++ + C+SC + +
Sbjct: 17 HTKCRRCGEKSYHTKKKVCSSCGFGK 42
>1aoz_A Ascorbate oxidase; oxidoreductase(oxygen acceptor); HET: NAG; 1.90A
{Cucurbita pepo var} SCOP: b.6.1.3 b.6.1.3 b.6.1.3 PDB:
1aso_A* 1asp_A* 1asq_A*
Length = 552
Score = 31.1 bits (71), Expect = 1.4
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 12/40 (30%)
Query: 421 PIPGIEVGQSYLYRFQASEAG---VHRPHVS-----GIHG 452
I G+++ Y F G H H+ G++G
Sbjct: 82 AIN---PGETFFYNFTVDNPGTFFYH-GHLGMQRSAGLYG 117
>2bw4_A Copper-containing nitrite reductase; oxidoreductase,
denitrification, catalysis, enzyme mechanism, nitrate
assimilation; 0.90A {Achromobacter cycloclastes} SCOP:
b.6.1.3 b.6.1.3 PDB: 1nib_A 1nia_A 1nid_A 1nie_A 1nic_A
1nif_A 2bw5_A 2bwd_A 2bwi_A 2nrd_A 2y1a_A 1kcb_A 1rzp_A*
1rzq_A 2avf_A 1as6_A 1aq8_A 1as7_A 1as8_A 2afn_A ...
Length = 340
Score = 31.0 bits (70), Expect = 1.5
Identities = 16/104 (15%), Positives = 31/104 (29%), Gaps = 16/104 (15%)
Query: 420 GPIPGIEVGQSYLYRFQASEAGVH--RPH---------VSGIHG-----REDVGAFSLVL 463
G + + G+ RF+A++ GV SG++G D
Sbjct: 109 GALTQVNPGEETTLRFKATKPGVFVYHCAPEGMVPWHVTSGMNGAIMVLPRDGLKDEKGQ 168
Query: 464 SGGYEDDVDDGDSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNK 507
Y+ G+ Y T ++++ + M
Sbjct: 169 PLTYDKIYYVGEQDFYVPKDEAGNYKKYETPGEAYEDAVKAMRT 212
>2dv6_A Nitrite reductase; electron transfer, reduction, denitrification,
oxidoreductase; 2.20A {Hyphomicrobium denitrificans}
Length = 447
Score = 31.0 bits (70), Expect = 1.6
Identities = 4/24 (16%), Positives = 10/24 (41%)
Query: 420 GPIPGIEVGQSYLYRFQASEAGVH 443
+ G+ + F+A G++
Sbjct: 233 AAFTQTDPGEETVVTFKALIPGIY 256
>2do9_A NALP10, nacht-, LRR- and PYD-containing protein 10; apoptosis,
inflammation, structural genomics, NPPSFA; NMR {Mus
musculus}
Length = 115
Score = 29.1 bits (65), Expect = 1.8
Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 4/77 (5%)
Query: 573 DFIVWRFHLQRDDEAPAPWTEEGKKRIKDLGLQMIYPEGYEEAQAAKEASK--ANLKRKV 630
F +FHL+ + E DL ++I Y +A + S+ +
Sbjct: 31 SFKTLKFHLRDVTQFHLARGELESLSQVDLASKLI--SMYGAQEAVRVVSRSLLAMNLME 88
Query: 631 SSETLGESKVKKSKQVY 647
+ L + + +++Y
Sbjct: 89 LVDYLNQVCLNDYREIY 105
>2q03_A Uncharacterized protein; YP_563039.1, structural genomics, J center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 1.80A {Shewanella denitrificans OS217}
SCOP: b.159.2.1
Length = 138
Score = 29.6 bits (66), Expect = 1.9
Identities = 14/72 (19%), Positives = 25/72 (34%), Gaps = 4/72 (5%)
Query: 420 GPIPGIEVGQSYLYRFQASEAG-VHRPHVSG-IHGREDVGAFSLVLSGGYEDDVDDGDSF 477
G + G + + + A V H +G + ++ G+F L G + V +
Sbjct: 45 GVLQGHSEIRYLMSYQDNANATFVGFEHFTGSLGDKK--GSFILQHKGLFAAGVASSEFE 102
Query: 478 LYTGSGGRDLSG 489
L S D
Sbjct: 103 LVERSATGDFVH 114
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 27.6 bits (62), Expect = 1.9
Identities = 11/55 (20%), Positives = 19/55 (34%), Gaps = 16/55 (29%)
Query: 319 CSICAGKTSP-DKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CPSCKRD 367
C++C + ++ C H +H C+ D W CP C+
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECV----------DMWLGSHSTCPLCRLT 52
>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting,
protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP:
a.4.5.54 a.4.5.54
Length = 566
Score = 30.8 bits (68), Expect = 2.0
Identities = 22/144 (15%), Positives = 33/144 (22%)
Query: 301 PECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF 360
P CT N + +C+ CG + KL HI K L
Sbjct: 184 PACTFANHPQIGNCEICGHRLPNASKVRSKLNRLNFHDSRVHIELEKNSLARNKSSHSAL 243
Query: 361 CPSCKRDTSEVIAPGQKLKDSKKKARMASTNSKSTRDWGKGMACVGRTKVCTIVPSDHFG 420
S +S K A+ + K + V G
Sbjct: 244 SSSSSTGSSTEFVQLSFRKSDGVLFSQATERALENILTEKNKHIFNQNVVSVNGVDMRKG 303
Query: 421 PIPGIEVGQSYLYRFQASEAGVHR 444
+ + S G+
Sbjct: 304 ASSHEYNNEVPFIETKLSRIGISS 327
>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 = 28.4 bits (63), Expect = 2.2
Identities = 16/65 (24%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 3 VKIRSLDGSKN--CVLVLSKRTLISDMKTQIENTL-DVPVDKQ--RLFYKGKQLEDEYML 57
V+I + + + I+++K T +Q RL KGK L+DE +L
Sbjct: 13 VEILDAKTREKLCFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVL 72
Query: 58 FDYNV 62
V
Sbjct: 73 QKLPV 77
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 29.0 bits (64), Expect = 2.3
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 6/71 (8%)
Query: 665 NVWDEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESD 724
++ + A+C+ ++ Q +E C H F C+ R K
Sbjct: 45 DIVVDNCAICRNHIMDLCIECQANQASATSEECTVA--WGVCNHAFHFHCISRWLK---- 98
Query: 725 ACNSCPYCRKE 735
CP +E
Sbjct: 99 TRQVCPLDNRE 109
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB
protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 29.1 bits (64), Expect = 2.3
Identities = 10/52 (19%), Positives = 17/52 (32%), Gaps = 2/52 (3%)
Query: 294 KTLRQIVPECTTCNDVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWC 345
+ L + C D + C CG P + +C+ C +W
Sbjct: 63 EQLGMLGSASVVCEDCKKNVCTKCGVET--SNNRPHPVWLCKICLEQREVWK 112
Score = 28.4 bits (62), Expect = 5.4
Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 1/69 (1%)
Query: 678 QKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMN 737
+++ QE+ ++ + + C C + + A C C+K +
Sbjct: 25 AEKMETMEQERIGRLVDRLETMRKNVAGDGVNRCILCGE-QLGMLGSASVVCEDCKKNVC 83
Query: 738 KSCLETHSN 746
C SN
Sbjct: 84 TKCGVETSN 92
>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3
ligase, ubiquitinylation, TPR, heat-shock protein
complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2
Length = 281
Score = 30.3 bits (68), Expect = 2.5
Identities = 17/130 (13%), Positives = 41/130 (31%), Gaps = 14/130 (10%)
Query: 591 WTEEGKKRIKDLGLQMIYPEGYEEAQAAKEASKANLKRKVSSETLGESKVKKSKQVYTLP 650
W ++RI Q Y A E + + + + E + +++Q
Sbjct: 125 WNSIEERRIH----QESELHSYLTRLIAAERERELEECQRNHEGHEDDGHIRAQQA---- 176
Query: 651 SSVLEHINNDTVHSNVWDEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTF 710
+D +++ + + +K I + I EL+ +P T+
Sbjct: 177 ---CIEAKHDKYMADMDELFS---QVDEKRKKRDIPDYLCGKISFELMREPCITPSGITY 230
Query: 711 CHDCLKRAFK 720
++ +
Sbjct: 231 DRKDIEEHLQ 240
>2zoo_A Probable nitrite reductase; electron transfer, electron transport,
heme, iron, binding, oxidoreductase, transport; HET: SUC
HEM; 1.95A {Pseudoalteromonas haloplanktis}
Length = 442
Score = 30.2 bits (68), Expect = 2.6
Identities = 8/51 (15%), Positives = 15/51 (29%), Gaps = 11/51 (21%)
Query: 418 HF----GPIPG-----IEVGQSYLYRFQASEAGVH--RPHVSGIHGREDVG 457
GP G G + + F+A G++ + + G
Sbjct: 87 DLHAVTGPGGGAESSFTAPGHTSTFNFKALNPGLYIYHCATAPVGMHIANG 137
>3fdr_A Tudor and KH domain-containing protein; TDRD2, structural genomics,
structural genomics consortium, SGC, alternative
splicing, RNA-binding; 1.75A {Homo sapiens}
Length = 94
Score = 28.2 bits (63), Expect = 2.7
Identities = 16/71 (22%), Positives = 28/71 (39%), Gaps = 15/71 (21%)
Query: 131 KVGDYVDAILETEGAWFESQITHILVDINKEKPYDEDDLIFKVVHLKYKDDG-SSTMKFD 189
VGD V A L T G+W+ +++ L + + L + D G +
Sbjct: 29 HVGDIVAAPLPTNGSWYRARVLGTLEN--------------GNLDLYFVDFGDNGDCPLK 74
Query: 190 DIRPLPKHLIT 200
D+R L ++
Sbjct: 75 DLRALRSDFLS 85
>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 94
Score = 28.4 bits (63), Expect = 2.8
Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 3/45 (6%)
Query: 689 FLCIICQELVYKPITL-DCVHTFCHDCLKRAFK--IESDACNSCP 730
F C I +E + KP+ C HT+ D + R + + CP
Sbjct: 8 FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCP 52
>1oe1_A Dissimilatory copper-containing nitrite reductase; denitrification;
HET: PG4; 1.04A {Alcaligenes xylosoxidans} SCOP: b.6.1.3
b.6.1.3 PDB: 1oe3_A* 2xwz_A* 2vn3_A 2zon_A* 1haw_A
1hau_A* 2vm4_A* 2vw4_A* 2vw6_A* 2vw7_A* 2vm3_A* 1oe2_A*
2jl0_A* 2xx1_A 2xxg_A* 2xxf_A* 1gs8_A 1wa1_X* 1wa2_X*
2jl3_A* ...
Length = 336
Score = 30.1 bits (68), Expect = 2.9
Identities = 22/113 (19%), Positives = 35/113 (30%), Gaps = 29/113 (25%)
Query: 420 GPIPG-----IEVGQSYLYRFQASEAGVH--RPH---------VSGIHG---------RE 454
G + G + G+ RF+A +G VSG+ G +
Sbjct: 98 GALGGAKLTNVNPGEQATLRFKADRSGTFVYHCAPEGMVPWHVVSGMSGTLMVLPRDGLK 157
Query: 455 DVGAFSLVLSGGYEDDVDDGDSFLYTGSGGRDLSGNKRTSVQSFDQTLTRMNK 507
D L Y+ G+ LY G + T +S+ T+ M
Sbjct: 158 DPQGKPLH----YDRAYTIGEFDLYIPKGPDGKYKDYATLAESYGDTVQVMRT 206
>2qub_A Extracellular lipase; beta roll, alpha/beta hydrolase, helical
hairpin, hydrolase; 1.80A {Serratia marcescens} PDB:
2qua_A
Length = 615
Score = 30.0 bits (67), Expect = 3.2
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 5/43 (11%)
Query: 462 VLSGGYEDDVD----DGDSFLYTGSGGRDLS-GNKRTSVQSFD 499
V++ GYE+D DG S G D + ++ +F+
Sbjct: 250 VINIGYENDPVFRALDGTSLTLPSLGVHDAPHTSATNNIVNFN 292
>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.44.1.2
Length = 98
Score = 28.2 bits (63), Expect = 3.2
Identities = 13/78 (16%), Positives = 28/78 (35%), Gaps = 7/78 (8%)
Query: 675 KEGQKEVLEHIQEKFLCIICQELVYKPITL-DCVHTFCHDCLKRAFKIESDACNSCPYCR 733
++ ++E ++FL I L+ P+ L T + R + + P+ R
Sbjct: 9 QQQEEETYADACDEFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSD----QTDPFNR 64
Query: 734 KEMNKSCLETHSNDALQS 751
+ + N L+
Sbjct: 65 SPLTMDQIR--PNTELKE 80
>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase, Zn
binding domain, metal zinc, zinc-finger, metal binding
protein; NMR {Homo sapiens}
Length = 69
Score = 27.3 bits (61), Expect = 3.7
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 15/65 (23%)
Query: 308 DVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF-----CP 362
+ T+ + C+IC + + C H +H C+ D+W CP
Sbjct: 6 EEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCV----------DQWLITNKKCP 55
Query: 363 SCKRD 367
C+ D
Sbjct: 56 ICRVD 60
>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase,
UBL conjugation pathway; NMR {Mus musculus}
Length = 85
Score = 27.7 bits (62), Expect = 3.8
Identities = 11/72 (15%), Positives = 23/72 (31%), Gaps = 6/72 (8%)
Query: 680 EVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRKEMNKS 739
++F + L+ P+ L + R + P+ R+ + +S
Sbjct: 6 IDYSDAPDEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNS----PTDPFNRQMLTES 61
Query: 740 CLETHSNDALQS 751
LE L+
Sbjct: 62 MLE--PVPELKE 71
>3pv2_A DEGQ; trypsin fold, PDZ domain, chaperone protease, hydrolase;
2.15A {Legionella fallonii} PDB: 3pv3_A 3pv5_A 3pv4_A
Length = 451
Score = 29.6 bits (67), Expect = 4.1
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 115 EPEDFVDLKPADSQYYKVGDYVDAI 139
+ ++ L DS +VGD+V AI
Sbjct: 133 DAKNLKSLVIGDSDKLEVGDFVVAI 157
>2z8x_A Lipase; beta roll, calcium binding protein, RTX protein, hydrolase;
1.48A {Pseudomonas SP} PDB: 2zvd_A 3a6z_A 3a70_A* 2z8z_A
2zj6_A 2zj7_A
Length = 617
Score = 29.7 bits (66), Expect = 4.2
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 4/32 (12%)
Query: 462 VLSGGYEDDV----DDGDSFLYTGSGGRDLSG 489
VL+ GYE+D DG +F G D
Sbjct: 247 VLNVGYENDPVFRALDGSTFTGASVGVHDAPK 278
>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB,
RAB27B, effector, SLP homology domain, acetylation,
lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}
Length = 153
Score = 28.8 bits (63), Expect = 4.2
Identities = 6/36 (16%), Positives = 13/36 (36%), Gaps = 3/36 (8%)
Query: 313 HCKDC---GCSICAGKTSPDKLIVCEECQHYYHIWC 345
C +C C C+ ++ +C+ C +
Sbjct: 87 QCLECSLFVCKSCSHAHPEEQGWLCDPCHLARVVKI 122
Score = 28.4 bits (62), Expect = 5.9
Identities = 11/78 (14%), Positives = 22/78 (28%), Gaps = 5/78 (6%)
Query: 668 DEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPIT-----LDCVHTFCHDCLKRAFKIE 722
+I+ + + + C C + + L+C C C + +
Sbjct: 48 GKIQKESSKRELLSDTAHLNETHCARCLQPYRLLLNSRRQCLECSLFVCKSCSHAHPEEQ 107
Query: 723 SDACNSCPYCRKEMNKSC 740
C+ C R S
Sbjct: 108 GWLCDPCHLARVVKIGSL 125
>3sqr_A Laccase; multicopper oxidase, glycosylation, oxidoreductase; HET:
NAG BMA MAN; 1.67A {Botrytis aclada}
Length = 580
Score = 29.7 bits (67), Expect = 4.7
Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 3/21 (14%)
Query: 421 PIPGIEVGQSYLYRFQASEAG 441
PI G + Y+FQ ++ G
Sbjct: 146 PIA---PGDTLTYKFQVTQYG 163
>2q9o_A Laccase-1; multicopper oxidase, 2-OXOH oxidoreductase; HET: OHI NAG
MAN GOL; 1.30A {Melanocarpus albomyces} SCOP: b.6.1.3
b.6.1.3 b.6.1.3 PDB: 3fu7_A* 3fu8_A* 3fu7_B* 1gw0_A*
2ih9_A* 2ih8_A* 3fu9_A* 3qpk_A* 3dkh_A* 3pps_A*
Length = 559
Score = 29.6 bits (67), Expect = 5.0
Identities = 8/21 (38%), Positives = 11/21 (52%), Gaps = 2/21 (9%)
Query: 421 PIPGIEVGQSYLYRFQASEAG 441
PIP G YR++A + G
Sbjct: 115 PIP--PKGGQRTYRWRARQYG 133
>6rxn_A Rubredoxin; electron transfer(iron-sulfur protein); 1.50A
{Desulfovibrio desulfuricans} SCOP: g.41.5.1
Length = 46
Score = 26.0 bits (58), Expect = 5.5
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 13/38 (34%)
Query: 333 VCEECQHYYHIWCLKP------PLESVPEDDEWFCPSC 364
VC C + Y P P + +P+D W CP C
Sbjct: 6 VCNVCGYEYD-----PAEHDNVPFDQLPDD--WCCPVC 36
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics,
structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB:
2yqm_A
Length = 82
Score = 27.0 bits (60), Expect = 5.6
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 13/51 (25%)
Query: 300 VPECTTCNDVETK-----HCKDCG---CSICAGKTSP-----DKLIVCEEC 337
C C + HC++CG C+ C+ + VC+ C
Sbjct: 19 ATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELALPSYPKPVRVCDSC 69
>1mzy_A Copper-containing nitrite reductase; mutant M182T, gating
mechanism, electron oxidoreductase; 1.46A {Rhodobacter
sphaeroides} SCOP: b.6.1.3 b.6.1.3 PDB: 1mzz_A 1n70_A
1zv2_A 2a3t_A 2dws_A 2dwt_A 2dy2_A
Length = 333
Score = 28.7 bits (64), Expect = 7.4
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 420 GPIPGIEVGQSYLYRFQASEAGVHRPH 446
G + I G+ + RF+A+ AG H
Sbjct: 102 GGLTLINPGEKVVLRFKATRAGAFVYH 128
>3rsn_A SET1/ASH2 histone methyltransferase complex subun; PHD domain,
winged helix domain, binding, transcription; 2.10A {Homo
sapiens} PDB: 3s32_A
Length = 177
Score = 28.2 bits (62), Expect = 7.6
Identities = 8/68 (11%), Positives = 16/68 (23%), Gaps = 8/68 (11%)
Query: 308 DVETKHCKDCGCSICAGKTSPDKLIVCEECQHYYHIWCLKPPLESVPEDDEWF---CPSC 364
D + D G+ + + C C ++ S + C C
Sbjct: 2 DTQAGSV-DEEN----GRQLGEVELQCGICTKWFTADTFGIDTSSCLPFMTNYSFHCNVC 56
Query: 365 KRDTSEVI 372
+
Sbjct: 57 HHSGNTYF 64
>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier,
signaling protein; NMR {Trypanosoma brucei}
Length = 110
Score = 27.2 bits (60), Expect = 8.1
Identities = 12/71 (16%), Positives = 30/71 (42%), Gaps = 1/71 (1%)
Query: 3 VKIRSLDGSKNCVLVLSKRTLISDMKTQIENTLDVPVDKQRLFYKGKQLEDEYMLFDYNV 62
VK+ + DG++ + RT + + + + R + G +++ + +
Sbjct: 29 VKVVNADGAE-MFFRIKSRTALKKLIDTYCKKQGISRNSVRFLFDGTPIDETKTPEELGM 87
Query: 63 NLNDVIQLMIK 73
+DVI M++
Sbjct: 88 EDDDVIDAMVE 98
>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 = 28.7 bits (63), Expect = 8.2
Identities = 13/88 (14%), Positives = 24/88 (27%), Gaps = 10/88 (11%)
Query: 668 DEIKALCKEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACN 727
+ + A KE + C IC+ V+ + + + C
Sbjct: 438 EALIAAGKEIIWHGRTKEEPAHYCSICEVEVFDLLFVTNESNSRKTYI--------VHCQ 489
Query: 728 SC--PYCRKEMNKSCLETHSNDALQSIL 753
C N LE + + L +
Sbjct: 490 DCARKTSGNLENFVVLEQYKMEDLMQVY 517
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 28.7 bits (65), Expect = 8.4
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 639 KVKKSKQVYTLPSSVLEHINNDTVHSNVWDEIKALCKE 676
K K+ + V + +L+ +NN+ + N+ E+K L
Sbjct: 371 KEKEMEIVSNYIADILDDVNNEKLQENIKQELKKLASN 408
>3l9v_A Putative thiol-disulfide isomerase or thioredoxin;
thioredoxin-fold, SRGA, thiol-disulfide oxidoreductase,
ISOM oxidoreductase; HET: PE8 P4C P6G; 2.15A {Salmonella
enterica subsp}
Length = 189
Score = 28.0 bits (61), Expect = 9.4
Identities = 11/62 (17%), Positives = 20/62 (32%), Gaps = 3/62 (4%)
Query: 346 LKPPLESVPEDDEWF---CPSCKRDTSEVIAPGQKLKDSKKKARMASTNSKSTRDWGKGM 402
+ PP+ P E+F CP C + + + +RM + G +
Sbjct: 8 ITPPVVDAPAVVEFFSFYCPPCYAFSQTMGVDQAIRHVLPQGSRMVKYHVSLLGPLGHEL 67
Query: 403 AC 404
Sbjct: 68 TR 69
>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin
ligase, E4 polyubiquitin chain EL factor,
phosphoprotein, UBL conjugation pathway; NMR {Homo
sapiens} PDB: 3l1x_A 3l1z_B
Length = 100
Score = 27.0 bits (60), Expect = 9.8
Identities = 11/77 (14%), Positives = 24/77 (31%), Gaps = 6/77 (7%)
Query: 675 KEGQKEVLEHIQEKFLCIICQELVYKPITLDCVHTFCHDCLKRAFKIESDACNSCPYCRK 734
+ ++F + L+ P+ L + R + P+ R+
Sbjct: 16 NARAEIDYSDAPDEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNS----PTDPFNRQ 71
Query: 735 EMNKSCLETHSNDALQS 751
+ +S LE L+
Sbjct: 72 TLTESMLE--PVPELKE 86
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
0.316 0.134 0.403
Gapped
Lambda K H
0.267 0.0776 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,575,064
Number of extensions: 714182
Number of successful extensions: 2368
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2228
Number of HSP's successfully gapped: 333
Length of query: 764
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 663
Effective length of database: 3,881,772
Effective search space: 2573614836
Effective search space used: 2573614836
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 (21.6 bits)
S2: 61 (27.2 bits)