RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8018
(280 letters)
>2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer,
retroviral protease domain, protein turnover; HET: DNA;
2.30A {Saccharomyces cerevisiae}
Length = 148
Score = 153 bits (388), Expect = 4e-47
Identities = 64/133 (48%), Positives = 90/133 (67%), Gaps = 1/133 (0%)
Query: 124 IKKSNIQANMEAAMEYNPETFGSVIMLYINCRVNGHPVKAFIDSGAQTTIMSAACAARVN 183
+K+ I + A+EY PE F V MLYIN +N +PVKAF+D+GAQTTIMS A +
Sbjct: 1 MKQQAIDEQLRNAIEYTPEMFTQVPMLYINIEINNYPVKAFVDTGAQTTIMSTRLAKKTG 60
Query: 184 ITRLIDTRWAGIAKGVGVQRIIGRIHMVQIAIENDFLTTSFSVLEDQPMDMLLGLDMLKR 243
++R+ID R+ G A+GVG +IIGRIH Q+ IE ++ SF+VL D +D+L+GLDMLKR
Sbjct: 61 LSRMIDKRFIGEARGVGTGKIIGRIHQAQVKIETQYIPCSFTVL-DTDIDVLIGLDMLKR 119
Query: 244 HQVQIAIENDFLT 256
H + ++ + L
Sbjct: 120 HLACVDLKENVLR 132
>3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural
genomics consortiu retropepsin-like domain, protein
turnover, hydrolase; 1.70A {Homo sapiens}
Length = 148
Score = 153 bits (387), Expect = 5e-47
Identities = 81/129 (62%), Positives = 96/129 (74%)
Query: 128 NIQANMEAAMEYNPETFGSVIMLYINCRVNGHPVKAFIDSGAQTTIMSAACAARVNITRL 187
+ + + P G V MLYINC+VNGHP+KAF+DSGAQ TIMS ACA R NI RL
Sbjct: 3 SSHHHHHHSSGLVPRGSGQVTMLYINCKVNGHPLKAFVDSGAQMTIMSQACAERCNIMRL 62
Query: 188 IDTRWAGIAKGVGVQRIIGRIHMVQIAIENDFLTTSFSVLEDQPMDMLLGLDMLKRHQVQ 247
+D RWAG+AKGVG QRIIGR+H+ QI IE DFL SFS+LEDQPMDMLLGLDML+RHQ
Sbjct: 63 VDRRWAGVAKGVGTQRIIGRVHLAQIQIEGDFLQCSFSILEDQPMDMLLGLDMLRRHQCS 122
Query: 248 IAIENDFLT 256
I ++ + L
Sbjct: 123 IDLKKNVLV 131
>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 = 85.8 bits (212), Expect = 1e-21
Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 4/86 (4%)
Query: 1 MKVTVTSLDNEC----FLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKT 56
M +TV + + F L V+ D EL NF+ CE++SG+ A+E I + L D+ +
Sbjct: 8 MLITVYCVRRDLTEVTFSLQVNPDFELSNFRVLCELESGVPAEEAQIVYMEQLLTDDHCS 67
Query: 57 LKDYNIQDGDLVLLKRVQVARTSNPS 82
L Y ++DGD+V+L + P
Sbjct: 68 LGSYGLKDGDMVVLLQKDNVGLRTPG 93
>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 = 52.0 bits (125), Expect = 5e-09
Identities = 15/83 (18%), Positives = 34/83 (40%), Gaps = 2/83 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ +T + E LD+ + K +I + + G L D+ KT+ +
Sbjct: 2 VSLTFKNFKKEKVPLDLEPSNTILETKTKLAQSISCEESQIKLIYSGKVLQDS-KTVSEC 60
Query: 61 NIQDGD-LVLLKRVQVARTSNPS 82
++DGD +V + + + + +
Sbjct: 61 GLKDGDQVVFMVSQKKSTKTKVT 83
>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 = 50.0 bits (120), Expect = 2e-08
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 2/83 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++V V +LD++ V + ++ FK I +++ + +QG L D+ K L++Y
Sbjct: 6 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD-KKLQEY 64
Query: 61 NIQDGDLVLLKRVQVARTSNPSD 83
N+ + L++R +T PS
Sbjct: 65 NVGGKVIHLVER-APPQTHLPSG 86
>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 = 50.1 bits (120), Expect = 2e-08
Identities = 16/85 (18%), Positives = 35/85 (41%), Gaps = 5/85 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+KVTV + + V++ ++ K + ++ + F G L D +L
Sbjct: 18 IKVTVKTPK-DKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-SLAQC 75
Query: 61 NIQDGD---LVLLKRVQVARTSNPS 82
++DG LV+ ++ + P+
Sbjct: 76 GVRDGLTVHLVIKRQHRAMGNECPA 100
>1yx5_B Ubiquitin; proteasome, UIM, hydrolase; NMR {Homo sapiens} SCOP:
d.15.1.1 PDB: 1yx6_B
Length = 98
Score = 48.6 bits (116), Expect = 6e-08
Identities = 30/98 (30%), Positives = 43/98 (43%), Gaps = 4/98 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 59
Query: 61 NIQDGD---LVLLKRVQVARTSNPSDDFARILRQQYEE 95
NIQ LVL R S+ D A L +
Sbjct: 60 NIQKESTLHLVLRLRGGRDPNSSSVDKLAAALEHHHHH 97
>1j8c_A Ubiquitin-like protein hplic-2; ubiquitin-like domain, structural
genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 125
Score = 49.5 bits (118), Expect = 7e-08
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 5/85 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+KVTV + E V E+ ++ FK + ++ + F G L D TL +
Sbjct: 33 IKVTVKTPK-EKEEFAVPENSSVQQFKEAISKRFKSQTDQLVLIFAGKILKDQD-TLIQH 90
Query: 61 NIQDGD---LVLLKRVQVARTSNPS 82
I DG LV+ + + +
Sbjct: 91 GIHDGLTVHLVIKRDPNSSSVDKYA 115
>2dzi_A Ubiquitin-like protein 4A; GDX, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 81
Score = 48.1 bits (115), Expect = 7e-08
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++TV +L L V ED + K + + ++ + F+G AL D K L DY
Sbjct: 8 MQLTVKALQGRECSLQVPEDELVSTLKQLVSEKLNVPVRQQRLLFKGKALADG-KRLSDY 66
Query: 61 NIQDGD---LVL 69
+I LV+
Sbjct: 67 SIGPNSKLNLVV 78
>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 = 48.2 bits (115), Expect = 7e-08
Identities = 27/85 (31%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 2 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 60
Query: 61 NIQDGD---LVLLKRVQVARTSNPS 82
NIQ LVL R +P
Sbjct: 61 NIQKESTLHLVLRLRGYADLREDPD 85
>3n3k_B Ubiquitin; hydrolase, protease, thiol protease, DUB, zinc ribbon,
inhibitor, ubiqu acetylation, cytoplasm, isopeptide
bond, nucleus; 2.60A {Homo sapiens}
Length = 85
Score = 47.7 bits (114), Expect = 9e-08
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L +L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 4 MRIVVKTLMGRTIILEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 62
Query: 61 NIQDGD---LVL 69
NI + L+L
Sbjct: 63 NIHNHSALYLLL 74
>1sif_A Ubiquitin; hydrophobic mutants, folding, stability, structural
protein; 2.18A {Homo sapiens} SCOP: d.15.1.1
Length = 88
Score = 47.7 bits (114), Expect = 9e-08
Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+++ + +L + F +++ +EN KA + + GI + + F G L D +TL DY
Sbjct: 10 LQLFIKTLTGKTFTVEMEPSDTIENLKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 68
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 69 NIQKESTLHLVL 80
>3mtn_B UBA80, ubcep1, ubiquitin variant UBV.21.4; ubiquitin-specific
protease activity, hydrolase, ubiquitin B structural
genomics consortium, SGC; 2.70A {Homo sapiens}
Length = 85
Score = 47.7 bits (114), Expect = 9e-08
Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 4 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 62
Query: 61 NIQDGD---LVL 69
NIQ L+L
Sbjct: 63 NIQKWSTLFLLL 74
>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 = 47.8 bits (114), Expect = 1e-07
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M + V +L + +D+ ++E K E + GI Q+ + + G + D KT DY
Sbjct: 13 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAADY 71
Query: 61 NIQDGD---LVL 69
I G LVL
Sbjct: 72 KILGGSVLHLVL 83
>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 = 47.4 bits (113), Expect = 1e-07
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++V V + D + ++ + + K E Q G+ ++ +EFQG L D L Y
Sbjct: 8 IQVFVKNPDGGSYAYAINPNSFILGLKQQIEDQQGLPKKQQQLEFQGQVLQDW-LGLGIY 66
Query: 61 NIQDGD---LVLLKR 72
IQD D L K
Sbjct: 67 GIQDSDTLILSKKKG 81
>2kk8_A Uncharacterized protein AT4G05270; solution arabidopsis thaliana,
uncharacterized putative protein, NESG, structural
genomics; NMR {Arabidopsis thaliana}
Length = 84
Score = 46.9 bits (112), Expect = 2e-07
Identities = 15/70 (21%), Positives = 25/70 (35%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
MK V +L+ F L+V L K E I + + G ++ T++
Sbjct: 11 MKFLVENLNGSSFELEVDYRDTLLVVKQKIERSQHIPVSKQTLIVDGIVILREDLTVEQC 70
Query: 61 NIQDGDLVLL 70
I + L
Sbjct: 71 QIVPTSDIQL 80
>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 = 46.9 bits (112), Expect = 2e-07
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M + V +L + +D+ ++E K E + GI Q+ + + G + D KT DY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAADY 59
Query: 61 NIQDGD---LVL 69
I G LVL
Sbjct: 60 KILGGSVLHLVL 71
>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 = 47.4 bits (113), Expect = 2e-07
Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 2/70 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++V+V + + ++E+ + FK +A + + F G L D L
Sbjct: 18 IRVSVKTPQDC-HEFFLAENSNVRRFKKQISKYLHCNADRLVLIFTGKILRDQ-DILSQR 75
Query: 61 NIQDGDLVLL 70
I DG V +
Sbjct: 76 GILDGSTVHV 85
>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 = 46.9 bits (112), Expect = 2e-07
Identities = 18/88 (20%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSG---ISAQEIAIEFQGNALVDNKKTL 57
M+VT+ +L + F +D+ + ++ K E + G + + G L D+ L
Sbjct: 1 MQVTLKTLQQQTFKIDIDPEETVKALKEKIESEKGKDAFPVAGQKLIYAGKILNDDT-AL 59
Query: 58 KDYNIQDGD---LVLLKRVQVARTSNPS 82
K+Y I + + +++ K V+ + +
Sbjct: 60 KEYKIDEKNFVVVMVTKPKAVSTPAPAT 87
>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 = 47.0 bits (112), Expect = 3e-07
Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+KVTV + + V++ ++ K + ++ + F G L D +L
Sbjct: 23 IKVTVKTP-KDKEDFSVTDTCTIQQLKEEISQRFKAHPDQLVLIFAGKILKDPD-SLAQC 80
Query: 61 NIQDGD---LVL 69
++DG LV+
Sbjct: 81 GVRDGLTVHLVI 92
>2ojr_A Ubiquitin; lanthide-binding TAG, terbium, TB, SAD phasing, protein
binding; 2.60A {Homo sapiens}
Length = 111
Score = 47.2 bits (112), Expect = 3e-07
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 36 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 94
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 95 NIQKESTLHLVL 106
>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 = 46.1 bits (110), Expect = 3e-07
Identities = 21/72 (29%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M + V +L + +D+ ++E K E + GI Q+ + + G + D KT DY
Sbjct: 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDE-KTAADY 59
Query: 61 NIQDGD---LVL 69
I G LVL
Sbjct: 60 KILGGSVLHLVL 71
>3phx_B Ubiquitin-like protein ISG15; OTU domain, DE-ubiquitinase,
DE-isgylase, hydrolase-protein complex; 1.60A {Homo
sapiens}
Length = 79
Score = 45.8 bits (109), Expect = 3e-07
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V + +V + + K G+ + F+G L D L +Y
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ-LPLGEY 63
Query: 61 NIQDGD---LVL 69
++ + L
Sbjct: 64 GLKPLSTVFMNL 75
>4eew_A Large proline-rich protein BAG6; ubiquitin-like fold,
GP78-binding, chaperone; 1.30A {Homo sapiens}
Length = 88
Score = 46.1 bits (110), Expect = 4e-07
Identities = 18/72 (25%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++V V +LD++ V + ++ FK I +++ + +QG L D+ K L++Y
Sbjct: 18 LEVLVKTLDSQTRTFIVGAQMNVKEFKEHIAASVSIPSEKQRLIYQGRVLQDD-KKLQEY 76
Query: 61 NIQDGDLVLLKR 72
N+ + L++R
Sbjct: 77 NVGGKVIHLVER 88
>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 = 46.2 bits (110), Expect = 4e-07
Identities = 16/74 (21%), Positives = 32/74 (43%), Gaps = 6/74 (8%)
Query: 1 MKVTVTSLDN--ECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLK 58
M + V ++D C + DVS +E + + + + ++G L + TL
Sbjct: 8 MWIQVRTIDGSKTCTIEDVSRKATIEELRERVWALFDVRPECQRLFYRGKQLENGY-TLF 66
Query: 59 DYNIQDGD---LVL 69
DY++ D L++
Sbjct: 67 DYDVGLNDIIQLLV 80
>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 = 45.8 bits (109), Expect = 4e-07
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 59
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 60 NIQRESTLHLVL 71
>2klc_A Ubiquilin-1; ubiquitin-like, structural genomics, PSI-2, protein
structur initiative, northeast structural genomics
consortium, NESG; NMR {Homo sapiens}
Length = 101
Score = 46.2 bits (110), Expect = 5e-07
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
MKVTV + E V E+ ++ FK + ++ + F G L D TL +
Sbjct: 26 MKVTVKTP-KEKEEFAVPENSSVQQFKEEISKRFKSHTDQLVLIFAGKILKDQD-TLSQH 83
Query: 61 NIQDGD---LVL 69
I DG LV+
Sbjct: 84 GIHDGLTVHLVI 95
>2kdi_A Ubiquitin, vacuolar protein sorting-associated protein 27 fusion
protein; ubiquitin interacting motif, UIM, protein
domain interface; NMR {Saccharomyces cerevisiae}
Length = 114
Score = 46.3 bits (110), Expect = 5e-07
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++ +L + L+V ++N K+ + + GI + + + G L D +TL DY
Sbjct: 10 FQIFAKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIWAGKQLEDG-RTLSDY 68
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 69 NIQRESTLHLVL 80
>2bwf_A Ubiquitin-like protein DSK2; signaling protein, UBA, signaling
proteins; 1.15A {Saccharomyces cerevisiae} SCOP:
d.15.1.1 PDB: 2bwe_S
Length = 77
Score = 45.3 bits (108), Expect = 6e-07
Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 1 MKVTVTSLD-NECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
M + + + + ++V+ + + FK +GI + + G L D++ T++
Sbjct: 3 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-TVES 61
Query: 60 YNIQDGD-LVLLKR 72
Y+IQDG + L+K
Sbjct: 62 YHIQDGHSVHLVKS 75
>3b1l_X E3 ubiquitin-protein ligase parkin; proteasome,
ALFA-beta-protein; 1.85A {Mus musculus} PDB: 1mg8_A
2zeq_A 2knb_A 1iyf_A
Length = 76
Score = 45.0 bits (107), Expect = 9e-07
Identities = 16/75 (21%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M V V + F ++V D + K Q G+ A ++ + F G L ++ T+++
Sbjct: 1 MIVFVRFNSSYGFPVEVDSDTSILQLKEVVAKQQGVPADQLRVIFAGKELPNH-LTVQNC 59
Query: 61 NIQDGD---LVLLKR 72
+++ +V R
Sbjct: 60 DLEQQSIVHIVQRPR 74
>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 = 45.1 bits (107), Expect = 9e-07
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V + +V + + K G+ + F+G L D L +Y
Sbjct: 5 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQ-LPLGEY 63
Query: 61 NIQDGD---LVL 69
++ + L
Sbjct: 64 GLKPLSTVFMNL 75
>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 = 44.9 bits (107), Expect = 1e-06
Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSG---ISAQEIAIEFQGNALVDNKKTL 57
+ +T+ +L + F + + D ++ K E + G + + G L D+ +
Sbjct: 6 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDDV-PI 64
Query: 58 KDYNIQDGDLVLL 70
+DY I + + V++
Sbjct: 65 RDYRIDEKNFVVV 77
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 45.1 bits (107), Expect = 1e-06
Identities = 12/70 (17%), Positives = 31/70 (44%), Gaps = 1/70 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ VTV ++ F ++V + + K + + + + + G L D+ + L +Y
Sbjct: 16 IHVTVKFP-SKQFTVEVDRTETVSSLKDKIHIVENTPIKRMQLYYSGIELADDYRNLNEY 74
Query: 61 NIQDGDLVLL 70
I + +++
Sbjct: 75 GITEFSEIVV 84
>3m63_B Ubiquitin domain-containing protein DSK2; armadillo-like repeats,
UBL conjugation pathway, nucleus, phosphoprotein; HET:
1PE; 2.40A {Saccharomyces cerevisiae}
Length = 101
Score = 45.0 bits (107), Expect = 1e-06
Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 1 MKVTVTSLD-NECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
M + + + + ++V+ + + FK +GI + + G L D++ T++
Sbjct: 27 MSLNIHIKSGQDKWEVNVAPESTVLQFKEAINKANGIPVANQRLIYSGKILKDDQ-TVES 85
Query: 60 YNIQDGD-LVLLKR 72
Y+IQDG + L+K
Sbjct: 86 YHIQDGHSVHLVKS 99
>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 = 46.0 bits (109), Expect = 1e-06
Identities = 8/72 (11%), Positives = 15/72 (20%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M T ++ + V E + E + V+ K
Sbjct: 1 MSDTEAPVEVQEDFEVVEEFTPVVLATPIPEEVQQAQTEIKLFNKWSFEEVEV-KDASLV 59
Query: 61 NIQDGD---LVL 69
+ V
Sbjct: 60 DYVQVRQPIFVA 71
>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 = 44.0 bits (104), Expect = 4e-06
Identities = 13/68 (19%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 8 LDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDYNIQDGD- 66
L+ + + + ++ K +G+ A + ++++G + D+ +L YN+ G
Sbjct: 43 LNGQGLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSN-SLAYYNMASGAV 101
Query: 67 --LVLLKR 72
L L +R
Sbjct: 102 IHLALKER 109
>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 = 44.2 bits (104), Expect = 6e-06
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 59
Query: 61 NIQD 64
NIQ
Sbjct: 60 NIQK 63
Score = 39.2 bits (91), Expect = 4e-04
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D + TL DY
Sbjct: 77 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-TLSDY 135
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 136 NIQKESTLHLVL 147
>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 = 43.3 bits (102), Expect = 6e-06
Identities = 15/72 (20%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 1 MKVTV-TSLDNECFLLDV-SEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLK 58
++V+ D + + V S + + K + I A + + + L DN +L
Sbjct: 30 IRVSKPNENDGQFMEITVQSLSENVGSLKEKIAGEIQIPANKQKLSGKAGFLKDNM-SLA 88
Query: 59 DYNIQDGDLVLL 70
YN+ G+++ L
Sbjct: 89 HYNVGAGEILTL 100
>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 = 43.2 bits (102), Expect = 7e-06
Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 4/77 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++ + + L V + + K G+ F G L +K ++
Sbjct: 24 CQLRLRLSTGKDLKLVVRSTDTVFHMKRRLHAAEGVEPGSQRWFFSGRPL-TDKMKFEEL 82
Query: 61 NIQDGD---LVLLKRVQ 74
I +++ + VQ
Sbjct: 83 KIPKDYVVQVIVSQPVQ 99
>3u30_A Ubiquitin, linear DI-ubiquitin; immune system; 2.43A {Homo
sapiens}
Length = 172
Score = 44.3 bits (104), Expect = 8e-06
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D +TL DY
Sbjct: 21 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 79
Query: 61 NIQD 64
NIQ
Sbjct: 80 NIQK 83
Score = 39.3 bits (91), Expect = 4e-04
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D + TL DY
Sbjct: 97 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-TLSDY 155
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 156 NIQKESTLHLVL 167
>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 = 43.0 bits (101), Expect = 2e-05
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V ++N K+ + + GI + + F G L ++ +TL DY
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQL-EDGRTLSDY 59
Query: 61 NIQDGD 66
NIQ
Sbjct: 60 NIQKES 65
>1v2y_A 3300001G02RIK protein; hypothetical protein, ubiquitin-like fold,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.15.1.1
Length = 105
Score = 41.9 bits (98), Expect = 2e-05
Identities = 21/97 (21%), Positives = 37/97 (38%), Gaps = 15/97 (15%)
Query: 1 MKVTVTSLDNECFLLDVSE-----DLELENFKAFCEVQSG------ISAQEI----AIEF 45
M V V +D E + V + DL+ + Q IS + +
Sbjct: 8 MTVRVCKMDGEVMPVVVVQNATVLDLKKAIQRYVQLKQEREGGVQHISWSYVWRTYHLTS 67
Query: 46 QGNALVDNKKTLKDYNIQDGDLVLLKRVQVARTSNPS 82
G L +++K L+DY I++ D V + ++ S
Sbjct: 68 AGEKLTEDRKKLRDYGIRNRDEVSFIKKLGQKSGPSS 104
>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 = 40.8 bits (96), Expect = 3e-05
Identities = 13/74 (17%), Positives = 31/74 (41%), Gaps = 6/74 (8%)
Query: 1 MKVTVTSLDNE--CFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLK 58
M + V ++D + +S ++E + + + + ++G + D TL
Sbjct: 3 MWIQVRTMDGRQTHTVDSLSRLTKVEELRRKIQELFHVEPGLQRLFYRGKQMEDGH-TLF 61
Query: 59 DYNIQDGD---LVL 69
DY ++ D L++
Sbjct: 62 DYEVRLNDTIQLLV 75
>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 = 43.8 bits (102), Expect = 3e-05
Identities = 14/84 (16%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSG---ISAQEIAIEFQGNALVDNKKTL 57
+ +T+ +L + F + + D ++ K E + G + + G L D+ +
Sbjct: 8 VTITLKTLQQQTFKIRMEPDETVKVLKEKIEAEKGRDAFPVAGQKLIYAGKILSDD-VPI 66
Query: 58 KDYNIQDGDLVLLKRVQVARTSNP 81
+DY I + + V++ +
Sbjct: 67 RDYRIDEKNFVVVMVTKTKAGQGT 90
>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 = 39.2 bits (92), Expect = 1e-04
Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+K+TV + L VS D +++ K+ + + + + + F+G LV+ TLK
Sbjct: 13 IKLTV-KFGGKSIPLSVSPDCTVKDLKSQLQPITNVLPRGQKLIFKGKVLVETS-TLKQS 70
Query: 61 NIQDGDLVLL 70
++ G ++L
Sbjct: 71 DVGSGAKLML 80
>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 = 42.1 bits (98), Expect = 1e-04
Identities = 25/72 (34%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V +EN KA + + GI + + F G L D + TL DY
Sbjct: 234 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-TLSDY 292
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 293 NIQKESTLHLVL 304
>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 = 40.4 bits (94), Expect = 1e-04
Identities = 20/66 (30%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M++ V +L + L+V ++N K+ + + GI + + F G L D +TL DY
Sbjct: 1 MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDG-RTLSDY 59
Query: 61 NIQDGD 66
NIQ
Sbjct: 60 NIQKES 65
>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 = 40.3 bits (94), Expect = 2e-04
Identities = 18/123 (14%), Positives = 36/123 (29%), Gaps = 16/123 (13%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQG-NALVDNKKTLKD 59
+TV L F + +S + + KA + G+ A + + + ++ L
Sbjct: 3 WDLTVKMLAGNEFQVSLSSSMSVSELKAQITQKIGVHAFQQRLAVHPSGVALQDRVPLAS 62
Query: 60 YNIQDGDLVLLKRVQVARTSNP---------------SDDFARILRQQYEEREKREQLRQ 104
+ G VLL + + L+QQ E +
Sbjct: 63 QGLGPGSTVLLVVDKSDEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLF 122
Query: 105 RML 107
+
Sbjct: 123 WLT 125
Score = 37.2 bits (86), Expect = 0.002
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V + +V + + K G+ + F+G L D L +Y
Sbjct: 82 LSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQL-PLGEY 140
Query: 61 NIQDGD---LVL 69
++ + L
Sbjct: 141 GLKPLSTVFMNL 152
>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 = 41.4 bits (96), Expect = 3e-04
Identities = 40/299 (13%), Positives = 92/299 (30%), Gaps = 105/299 (35%)
Query: 3 VTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIE---------FQG----NA 49
+ + + ++ +L++ + L + + S ++ I + N
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 50 L-----VDNKKTLKDYNIQDGDLVLLKRVQVA------RTSNPSDD-------------- 84
L V N K +N+ L+ + QV T++ S D
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 85 FARILRQQYEEREKREQLRQRMLTADPFDTEAQKLIAEEIK-------------KSNIQA 131
+ L + ++ L + +LT +P +IAE I+ +
Sbjct: 307 LLKYLDCRPQD------LPREVLTTNPR---RLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 132 NMEAAMEY-NPETFGSVIMLYINCRVNGHPVKAFIDSGAQTTIMSAACAARVNIT-RLID 189
+E+++ P + ++ V F S +I L+
Sbjct: 358 IIESSLNVLEPAEYRK---MFDRLSV-------FPPS--------------AHIPTILLS 393
Query: 190 TRWAGIAKGVGVQRIIGRIHMVQIAIENDFLTTSFSVLEDQPMDMLLGLDMLKRHQVQI 248
W + K V ++ ++H +S++E QP + + + + +
Sbjct: 394 LIWFDVIKSD-VMVVVNKLH-------------KYSLVEKQPKESTISI-----PSIYL 433
Score = 28.3 bits (62), Expect = 3.5
Identities = 33/271 (12%), Positives = 80/271 (29%), Gaps = 72/271 (26%)
Query: 1 MKVTVTSLD--------NECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALV- 51
++ ++ L+ + + S + + + +LV
Sbjct: 359 IESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Query: 52 -DNKKTLKDYNIQDGDLVLLKRVQVARTSNPSDDFA--RILRQQYEEREKREQLRQRMLT 108
K++ +I L L +++A R + Y + + L
Sbjct: 419 KQPKEST--ISIPSIYLELKV--------KLENEYALHRSIVDHYNIPKTFD---SDDLI 465
Query: 109 ADPFDTEAQKLIAEEIKKSNIQANMEAAMEYNPETFGSVIMLYINCRVNGHPVKAFIDSG 168
D I +K +PE M++++ R F++
Sbjct: 466 PPYLDQYFYSHIGHHLKNIE-----------HPERMTLFRMVFLDFR--------FLE-- 504
Query: 169 AQTTIMSAACAARVNITRLIDTRWAGIAKGVG-VQRIIGRIHMVQIAIENDFLTTSFSVL 227
++ R T W + +Q++ + + I +ND + L
Sbjct: 505 -----------QKI---RHDSTAWNASGSILNTLQQL--KFYKPYI-CDND---PKYERL 544
Query: 228 EDQPMDMLLGLD-MLKRHQ----VQIAIEND 253
+ +D L ++ L + ++IA+ +
Sbjct: 545 VNAILDFLPKIEENLICSKYTDLLRIALMAE 575
>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 = 37.7 bits (87), Expect = 5e-04
Identities = 13/84 (15%), Positives = 28/84 (33%), Gaps = 3/84 (3%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ V + L++ L + + K ++ + +QG L D +TL
Sbjct: 8 INVRLKFLNDTEELAVARPEDTVGTLK---SKYFPGQESQMKLIYQGRLLQDPARTLSSL 64
Query: 61 NIQDGDLVLLKRVQVARTSNPSDD 84
NI + ++ R +
Sbjct: 65 NITNNCVIHCHRSPPGAAVSGPSA 88
>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 = 36.8 bits (85), Expect = 0.001
Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 2/70 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
VTV + ++++ D FKA +G+ + +G L D+ +
Sbjct: 8 YSVTVKWGKEKFEGVELNTDEPPMVFKAQLFALTGVQPARQKVMVKGGTLKDD--DWGNI 65
Query: 61 NIQDGDLVLL 70
+++G VL+
Sbjct: 66 KMKNGMTVLM 75
>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 = 35.3 bits (81), Expect = 0.003
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 17 VSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDYNIQDGD 66
+ + +FK +Q G +I ++ G+ L D+ +L+DY + D
Sbjct: 38 CLGEDSVGDFKKVLSLQIGTQPNKIVLQKGGSVLKDHI-SLEDYEVHDQT 86
>2l7r_A Ubiquitin-like protein FUBI; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; NMR {Homo sapiens}
Length = 93
Score = 34.8 bits (80), Expect = 0.005
Identities = 10/58 (17%), Positives = 21/58 (36%), Gaps = 4/58 (6%)
Query: 15 LDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDYNIQDG---DLVL 69
+V+ + KA GI+ ++ + G L D TL ++ ++
Sbjct: 32 FEVTGQETVAQIKAHVASLEGIAPEDQVVLLAGAPLEDEA-TLGQCGVEALTTLEVAG 88
>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 = 34.9 bits (80), Expect = 0.008
Identities = 15/83 (18%), Positives = 29/83 (34%), Gaps = 7/83 (8%)
Query: 2 KVTVTS-LDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGN------ALVDNK 54
+ +T+ + + L + K E+ G + + I+ L D
Sbjct: 8 DLEITTNATDFPMEKKYPAGMSLNDLKKKLELVVGTTVDSMRIQLFDGDDQLKGELTDGA 67
Query: 55 KTLKDYNIQDGDLVLLKRVQVAR 77
K+LKD ++DG + V
Sbjct: 68 KSLKDLGVRDGYRIHAVDVTGGN 90
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.5 bits (81), Expect = 0.009
Identities = 10/63 (15%), Positives = 24/63 (38%), Gaps = 4/63 (6%)
Query: 86 ARILRQQYEEREKREQLRQRMLTADPFDTEAQKLIAEEIKKSNIQANMEAAMEYNPETFG 145
R+ + ++ R++ A E + +E+++K N N A + +
Sbjct: 96 KRLQELDAASKVMEQEWREK---AKKDLEEWNQRQSEQVEK-NKINNRIADKAFYQQPDA 151
Query: 146 SVI 148
+I
Sbjct: 152 DII 154
Score = 26.3 bits (57), Expect = 9.2
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 86 ARILRQQYEE---REKREQLRQRMLTADPFDTEAQKLIAEEIKKSNIQANMEAAMEYN 140
A+ R E R+ RE+ R+R+ D A K++ +E ++ + E +
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELD----AASKVMEQEWREKAKKDLEEWNQRQS 128
>3q3f_A Ribonuclease/ubiquitin chimeric protein; domain SWAP,
oligomerization, ubiquitin insertion, hydrolase binding;
2.17A {Bacillus amyloliquefaciens}
Length = 189
Score = 35.3 bits (81), Expect = 0.010
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++ V +L + L+V +EN KA + + GI + + F G L D + TL DY
Sbjct: 106 GQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGR-TLSDY 164
Query: 61 NIQDGD---LVL 69
NIQ LVL
Sbjct: 165 NIQKESTLHLVL 176
>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 = 36.2 bits (83), Expect = 0.012
Identities = 27/156 (17%), Positives = 54/156 (34%), Gaps = 51/156 (32%)
Query: 44 EFQGNALVDNKKTLKDYNIQDG-DLVLLKRVQVARTSNPSDDFAR-ILRQQYEEREKREQ 101
E+ AL + +I+ ++V F R + Q R++ +
Sbjct: 1766 EY--AALASLADVM---SIESLVEVV----------------FYRGMTMQVAVPRDELGR 1804
Query: 102 LRQRMLTADP------FDTEAQKLIAEEIKKSN---IQ-ANMEAAMEYNPETFGSVIMLY 151
M+ +P F EA + + E + K ++ N YN E Y
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN------YNVE--NQQ---Y 1853
Query: 152 INCRVNGHPVKAFIDSGAQTTIMSAACAARVNITRL 187
+ G ++A +D T +++ +++I L
Sbjct: 1854 V---AAGD-LRA-LD--TVTNVLNFIKLQKIDIIEL 1882
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 33.3 bits (76), Expect = 0.014
Identities = 19/85 (22%), Positives = 33/85 (38%), Gaps = 4/85 (4%)
Query: 2 KVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEF----QGNALVDNKKTL 57
+V + L +S L + +GI+ I + L D TL
Sbjct: 2 RVRCKAKGGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITL 61
Query: 58 KDYNIQDGDLVLLKRVQVARTSNPS 82
D IQ GD+++++ Q ++PS
Sbjct: 62 GDLPIQSGDMLIVEEDQTRPKASPS 86
>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 = 33.5 bits (76), Expect = 0.016
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 1/66 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
++V + + + D + + K Q+G +I ++ D+ +L DY
Sbjct: 29 IEVVCNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRWNKIVLKKWYTIFKDHV-SLGDY 87
Query: 61 NIQDGD 66
I DG
Sbjct: 88 EIHDGM 93
>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 = 32.8 bits (74), Expect = 0.021
Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 4/74 (5%)
Query: 1 MKVTVT----SLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKT 56
+ VTVT D S + +++ E G+ + F+G +L + +
Sbjct: 8 LTVTVTHSNEKHDLHVTSQQGSSEPVVQDLAQVVEEVIGVPQSFQKLIFKGKSLKEMETP 67
Query: 57 LKDYNIQDGDLVLL 70
L IQDG V+L
Sbjct: 68 LSALGIQDGCRVML 81
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 33.6 bits (76), Expect = 0.045
Identities = 12/81 (14%), Positives = 29/81 (35%), Gaps = 7/81 (8%)
Query: 58 KDYNIQDGDLVLLKRVQVARTSNPSDDFARILRQQYEEREKREQLRQRML-TADPFDTEA 116
+Y+ + + + P RI+ E + +++ ++ ++ +PF+ A
Sbjct: 122 VNYSSEVKENSVD--SDDKAKVPP---LIRIV-SGLELSDTKQKGKKFLVIAYEPFENIA 175
Query: 117 QKLIAEEIKKSNIQANMEAAM 137
+L EI S
Sbjct: 176 IELPPNEILFSENNDMDNNND 196
>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.30A {Homo
sapiens} SCOP: d.15.1.1
Length = 91
Score = 31.7 bits (72), Expect = 0.062
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 1/68 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V D + L + G+S ++I F G + + T
Sbjct: 6 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-TPAQL 64
Query: 61 NIQDGDLV 68
++D D +
Sbjct: 65 EMEDEDTI 72
>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 = 31.0 bits (70), Expect = 0.10
Identities = 11/72 (15%), Positives = 28/72 (38%), Gaps = 2/72 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGI--SAQEIAIEFQGNALVDNKKTLK 58
+ + V E + +SED + + K F + +G+ Q++ +N L
Sbjct: 8 LPIIVKWGGQEYSVTTLSEDDTVLDLKQFLKTLTGVLPERQKLLGLKVKGKPAENDVKLG 67
Query: 59 DYNIQDGDLVLL 70
++ +++
Sbjct: 68 ALKLKPNTKIMM 79
>2k8h_A Small ubiquitin protein; SUMO, post-translational modifier,
signaling protein; NMR {Trypanosoma brucei}
Length = 110
Score = 31.1 bits (70), Expect = 0.12
Identities = 14/69 (20%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+ V V + D + L+ +C+ + GIS + F G + + K T ++
Sbjct: 27 VAVKVVNADGAEMFFRIKSRTALKKLIDTYCK-KQGISRNSVRFLFDGTPIDETK-TPEE 84
Query: 60 YNIQDGDLV 68
++D D++
Sbjct: 85 LGMEDDDVI 93
>3goe_A DNA repair protein RAD60; SUMO-like domain, sumoylation, SUMO,
genome stability, DNA damage, DNA recombination,
nucleus; HET: DNA; 0.97A {Schizosaccharomyces pombe}
PDB: 3rcz_A*
Length = 82
Score = 30.3 bits (68), Expect = 0.14
Identities = 15/69 (21%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENF-KAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+ + + S +E L + D +++ K +C + I +EF+G L D ++
Sbjct: 10 ITLLLRSSKSEDLRLSIPVDFTVKDLIKRYCTEVKISFHERIRLEFEGEWL-DPNDQVQS 68
Query: 60 YNIQDGDLV 68
++D D V
Sbjct: 69 TELEDEDQV 77
>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics,
PSI-2, protein structure initiative; NMR {Drosophila
melanogaster}
Length = 95
Score = 30.6 bits (69), Expect = 0.16
Identities = 15/71 (21%), Positives = 30/71 (42%), Gaps = 7/71 (9%)
Query: 2 KVTVTSLDNECFLLD--VSEDLELENFKAFCEVQSGISAQEIAIEFQGN-----ALVDNK 54
KV V++ N+ + +++DL + K E+ +G A + ++ + +N
Sbjct: 17 KVNVSNSHNDAVAFEVKLAKDLTVAQLKTKLEILTGGCAGTMKVQVFKGDTCVSTMDNND 76
Query: 55 KTLKDYNIQDG 65
L Y DG
Sbjct: 77 AQLGYYANSDG 87
>3kyd_D Small ubiquitin-related modifier 1; SUMO, thioester, adenylation,
inhibitor, TETR intermediate, ligase, nucleus,
phosphoprotein; HET: VMX; 2.61A {Homo sapiens}
Length = 115
Score = 30.7 bits (69), Expect = 0.20
Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+K+ V D+ V L+ +++C+ + G+ + F+G + DN T K+
Sbjct: 41 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQ-RQGVPMNSLRFLFEGQRIADNH-TPKE 98
Query: 60 YNIQDGDLV 68
+++ D++
Sbjct: 99 LGMEEEDVI 107
>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule,
structural genomics, sentrin2, NPPFSA; NMR {Homo
sapiens} SCOP: d.15.1.1
Length = 104
Score = 30.2 bits (68), Expect = 0.20
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 1/68 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V D + L + G+S ++I F G + + T
Sbjct: 25 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-TPAQL 83
Query: 61 NIQDGDLV 68
++D D +
Sbjct: 84 EMEDEDTI 91
>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division,
nuclear protein, ubiquitin-like modifier, UBL
conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1
PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B
3uip_B* 1tgz_B* 2bf8_B
Length = 79
Score = 29.7 bits (67), Expect = 0.21
Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+K+ V D+ V L+ +++C+ + G+ + F+G + DN T K+
Sbjct: 4 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQ-RQGVPMNSLRFLFEGQRIADNH-TPKE 61
Query: 60 YNIQDGDLV 68
+++ D++
Sbjct: 62 LGMEEEDVI 70
>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 = 30.1 bits (68), Expect = 0.23
Identities = 11/70 (15%), Positives = 27/70 (38%), Gaps = 3/70 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + + + + V D K +G+ + ++G LV KTL++
Sbjct: 18 VDLKIIW-NKTKHDVKVPLDSTGSELKQKIHSITGLPPAMQKVMYKG--LVPEDKTLREI 74
Query: 61 NIQDGDLVLL 70
+ G +++
Sbjct: 75 KVTSGAKIMV 84
>1wyw_B Ubiquitin-like protein SMT3C; hydrolase; 2.10A {Homo sapiens}
SCOP: d.15.1.1 PDB: 1y8r_C* 2asq_A 2pe6_B 1a5r_A 2kqs_A
3kyc_D* 3rzw_C
Length = 97
Score = 29.9 bits (67), Expect = 0.25
Identities = 14/69 (20%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+K+ V D+ V L+ +++C+ + G+ + F+G + DN T K+
Sbjct: 22 IKLKVIGQDSSEIHFKVKMTTHLKKLKESYCQ-RQGVPMNSLRFLFEGQRIADNH-TPKE 79
Query: 60 YNIQDGDLV 68
+++ D++
Sbjct: 80 LGMEEEDVI 88
>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel,
two helices, protein transport; 1.20A {Homo sapiens}
SCOP: d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B
Length = 72
Score = 29.0 bits (65), Expect = 0.32
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+ + V D + L KA+CE + G+S ++I F G + + T
Sbjct: 2 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCE-RQGLSMRQIRFRFDGQPINETD-TPAQ 59
Query: 60 YNIQDGDLV 68
++D D +
Sbjct: 60 LEMEDEDTI 68
>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution
PSI-2, structural genomics, protein structure
initiative; NMR {Arabidopsis thaliana}
Length = 97
Score = 29.1 bits (65), Expect = 0.55
Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 8/72 (11%)
Query: 2 KVTVTSLDNECFLLD--VSEDLELENFKAFCEVQSGISAQEIAIEFQGN------ALVDN 53
+ +T + + F D S + +E K + G S +A+E + L D+
Sbjct: 16 HLHITHANLKSFSADARFSPQMSVEAVKEKLWKKCGTSVNSMALELYDDSGSKVAVLSDD 75
Query: 54 KKTLKDYNIQDG 65
+ L ++ DG
Sbjct: 76 SRPLGFFSPFDG 87
>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens}
SCOP: d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A
2k1f_A
Length = 93
Score = 29.0 bits (65), Expect = 0.56
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELEN-FKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKD 59
+ + V D + L KA+CE + G+S ++I F G + + T
Sbjct: 18 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCE-RQGLSMRQIRFRFDGQPINETD-TPAQ 75
Query: 60 YNIQDGDLV 68
++D D +
Sbjct: 76 LEMEDEDTI 84
>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.60A {Homo
sapiens} SCOP: d.15.1.1
Length = 94
Score = 28.6 bits (64), Expect = 0.62
Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 1/68 (1%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
+ + V D + L + G+S ++I F G + + T
Sbjct: 8 INLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFRFDGQPINETD-TPAQL 66
Query: 61 NIQDGDLV 68
++D D +
Sbjct: 67 EMEDEDTI 74
>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 = 0.69
Identities = 11/63 (17%), Positives = 22/63 (34%), Gaps = 4/63 (6%)
Query: 12 CFLLDVSEDLELENFK-AFCEVQSGISA--QEIAIEFQGNALVDNKKTLKDYNIQDGDLV 68
CFL V + K F + Q + ++ +G +L D L+ + +
Sbjct: 25 CFLDKVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDED-VLQKLPVGTTATL 83
Query: 69 LLK 71
+
Sbjct: 84 YFR 86
>2vz4_A Tipal, HTH-type transcriptional activator TIPA; transcription,
resistance, antibiotic; 2.90A {Streptomyces lividans}
Length = 108
Score = 27.6 bits (62), Expect = 1.7
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 14/59 (23%)
Query: 64 DGDLVLLKRVQVART------------SNPSDDFARILRQQYEE-REKREQLRQRMLTA 109
D DL L+++ R +P+ D LR+Q+E + +L Q+M A
Sbjct: 42 DADLDRLQQILFYRELGFPLDEVAALLDDPAADPRAHLRRQHELLSARIGKL-QKMAAA 99
>2xzm_9 RPS31E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_9
Length = 189
Score = 27.8 bits (61), Expect = 2.9
Identities = 11/69 (15%), Positives = 25/69 (36%), Gaps = 3/69 (4%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGNALVDNKKTLKDY 60
M+V V +L+ E + + + + + K+ G + + G + + + D
Sbjct: 1 MQVQVKTLEGETKIYTLEQGTSVLDLKSQISQDMGFEIDMMTLVNNGFIAPNT-ELVTDD 59
Query: 61 NIQDGDLVL 69
L L
Sbjct: 60 VTY--YLSL 66
>3ddy_A Lumazine protein, LUMP; luminescent bacteria, lumazine PR
riboflavin synthase, luminescence, luminescent protein;
HET: RBF; 2.50A {Photobacterium leiognathi}
Length = 186
Score = 27.8 bits (63), Expect = 3.1
Identities = 5/24 (20%), Positives = 9/24 (37%)
Query: 4 TVTSLDNECFLLDVSEDLELENFK 27
TV + + D+ + L F
Sbjct: 50 TVVRILGDMVYFDIDQALGTTTFD 73
>3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A
{Mason-pfizer monkey virus} PDB: 1nso_A
Length = 114
Score = 27.1 bits (60), Expect = 3.3
Identities = 5/24 (20%), Positives = 11/24 (45%)
Query: 152 INCRVNGHPVKAFIDSGAQTTIMS 175
+ ++ I++GA TI+
Sbjct: 12 LTLWLDDKMFTGLINTGADVTIIK 35
>1wjn_A Tubulin-folding protein TBCE; ubiquitin-like domain, progressive
motor neuropathy, structural genomics; NMR {Mus
musculus} SCOP: d.15.1.1
Length = 97
Score = 26.4 bits (58), Expect = 4.2
Identities = 6/22 (27%), Positives = 17/22 (77%)
Query: 50 LVDNKKTLKDYNIQDGDLVLLK 71
L ++ + L+ Y++++GD +L++
Sbjct: 69 LENDLQPLQFYSVENGDCLLVR 90
>3a35_A Lumazine protein, LUMP; luminous bacteria, homologue of
riboflavin synthase, luminescent protein; HET: RBF;
1.42A {Photobacterium kishitanii} PDB: 3a3b_B* 3a3g_A*
Length = 190
Score = 27.1 bits (61), Expect = 4.9
Identities = 4/24 (16%), Positives = 10/24 (41%)
Query: 4 TVTSLDNECFLLDVSEDLELENFK 27
TV + + D+ + + F+
Sbjct: 50 TVVRISGDVVYFDIDQAINTTTFR 73
>3h6n_A Plexin-D1; structural genomics consortium, SGC, membrane,
transmembrane, receptor, alternative splicing, cell
membrane, glycoprotein, polymorphism; 2.00A {Homo
sapiens}
Length = 127
Score = 26.5 bits (58), Expect = 5.2
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 56 TLKDYNIQDGDLVLLKRVQVARTSN 80
TL Y I +G + + + +
Sbjct: 87 TLAHYKIPEGASLAMSLIDKKDNTL 111
>4e71_A Plexin-B2, MM1; transmembrane, signaling, RBD, structural genomics
consortium, SGC, signaling protein; 2.26A {Homo sapiens}
Length = 111
Score = 26.4 bits (58), Expect = 6.1
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 56 TLKDYNIQDGDLVLLKRV 73
TL YN++DG ++L +V
Sbjct: 93 TLMHYNVRDGATLILSKV 110
>4dbg_A Ranbp-type and C3HC4-type zinc finger-containing; ubiquitin fold,
ubiquitination, ligase; 2.71A {Homo sapiens} PDB:
2lgy_A
Length = 105
Score = 25.7 bits (56), Expect = 8.5
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 1 MKVTVTSLDNECFLLDVSEDLELENFKAFCEVQSGI--SAQEIAIEFQGNALVDNKKTLK 58
+ V + L V D+ + + K + G Q+ I G L +++TL
Sbjct: 27 VSVEDAQMHTVTIWLTVRPDMTVASLKDMVFLDYGFPPVLQQWVI---GQRLARDQETLH 83
Query: 59 DYNIQ-DGDLVLL 70
+ ++ +GD L
Sbjct: 84 SHGVRQNGDSAYL 96
>1v6e_A Cytoskeleton-associated protein 1; tubulin-specific chaperone B,
tubulin folding cofactor B, microtubule, ubiquitin-like
fold, structural genomics; NMR {Mus musculus} SCOP:
d.15.1.1
Length = 95
Score = 25.6 bits (56), Expect = 8.6
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 7/71 (9%)
Query: 2 KVTVTS-LDNECFLLDVSEDLELENFKAFCEVQSGISAQEIAIEFQGN------ALVDNK 54
V ++S L++ S L + FK E+ G A + +E G L
Sbjct: 9 MVFISSSLNSFRSEKRYSRSLTIAEFKCKLELVVGSPASCMELELYGADDKFYSKLDQED 68
Query: 55 KTLKDYNIQDG 65
L Y + DG
Sbjct: 69 ALLGSYPVDDG 79
>1jhf_A LEXA repressor; LEXA SOS repressor, hydrolase; 1.80A {Escherichia
coli} SCOP: a.4.5.2 b.87.1.1 PDB: 1jhh_A 3jso_A* 3jsp_A*
3k3r_E* 1jhc_A 1jhe_A 1lea_A 1leb_A
Length = 202
Score = 26.4 bits (59), Expect = 9.5
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 58 KDYNIQDGDLVLLKRVQVAR 77
KD I DGDL+ + + Q R
Sbjct: 121 KDIGIMDGDLLAVHKTQDVR 140
>1r8d_A Transcription activator MTAN; protein-DNA complex,
transcription/DNA complex; 2.70A {Bacillus subtilis}
SCOP: a.6.1.3 PDB: 1jbg_A
Length = 109
Score = 25.6 bits (57), Expect = 9.9
Identities = 12/60 (20%), Positives = 26/60 (43%), Gaps = 13/60 (21%)
Query: 64 DGDLVLLKRVQVART------------SNPSDDFARILRQQYEE-REKREQLRQRMLTAD 110
D DL L+++ + +P+ D L+ Q E +K++++ + + T D
Sbjct: 43 DADLERLQQILFFKEIGFRLDEIKEMLDHPNFDRKAALQSQKEILMKKKQRMDEMIQTID 102
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
0.320 0.134 0.373
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,266,407
Number of extensions: 262160
Number of successful extensions: 894
Number of sequences better than 10.0: 1
Number of HSP's gapped: 844
Number of HSP's successfully gapped: 114
Length of query: 280
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 188
Effective length of database: 4,133,061
Effective search space: 777015468
Effective search space used: 777015468
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 57 (25.7 bits)