RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10992
(179 letters)
>3lvl_A NIFU-like protein; protein-protein complex, structural genomics,
montreal-kings bacterial structural genomics initiative,
BSGI; HET: PLP; 3.00A {Escherichia coli} PDB: 2l4x_A
2kqk_A 1q48_A 1r9p_A 1wfz_A
Length = 129
Score = 211 bits (540), Expect = 1e-71
Identities = 94/125 (75%), Positives = 111/125 (88%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E VIDHYENPRNVGS D D+NVG+G+VGAPACGDVMKLQIKV+D G I DA+FKT+G
Sbjct: 4 YSEKVIDHYENPRNVGSFDNNDENVGSGMVGAPACGDVMKLQIKVNDEGIIEDARFKTYG 63
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELCLPPVKLHCSMLAEDAIKAALSDYR 169
CGSAIASSSL TEWVKGK++DEA +KNTDIA+EL LPPVK+HCS+LAEDAIKAA++DY+
Sbjct: 64 CGSAIASSSLVTEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYK 123
Query: 170 IKQNS 174
K+ +
Sbjct: 124 SKREA 128
>2z7e_A ISCU protein, NIFU-like protein; iron-sulfur cluster, iron,
biosynthesis, [2Fe-2S], asymmetric trimer, three
conserved Cys; 2.30A {Aquifex aeolicus}
Length = 157
Score = 203 bits (518), Expect = 4e-68
Identities = 65/132 (49%), Positives = 83/132 (62%), Gaps = 5/132 (3%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVD-DNGKIIDAKFKTF 108
Y+E V+DH+ NPRNVG L+ + G G G PACG M IKV+ +N I D +FKTF
Sbjct: 5 YNEKVLDHFLNPRNVGVLEDAN---GVGQCGNPACGAAMLFTIKVNPENDVIEDVRFKTF 61
Query: 109 GCGSAIASSSLATEWVKGKTVDEALKLKNTDIAKEL-CLPPVKLHCSMLAEDAIKAALSD 167
GCGSAIA SS+ TE VKGK + AL L DI +EL LPP K+HC+ L + + A+ D
Sbjct: 62 GCGSAIAVSSMLTEMVKGKPIQYALNLTYKDIFEELGGLPPQKIHCTNLGLETLHVAIKD 121
Query: 168 YRIKQNSAKAAQ 179
Y +KQ + A
Sbjct: 122 YLMKQGRVEEAS 133
>4eb5_C NIFU protein (NIFU-1); scaffold, transferase-metal binding protein
complex; HET: PLP EPE; 2.53A {Archaeoglobus fulgidus}
PDB: 4eb7_C*
Length = 153
Score = 195 bits (498), Expect = 4e-65
Identities = 64/129 (49%), Positives = 85/129 (65%), Gaps = 5/129 (3%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y + V DH++NPRNVG ++ D G G VG P CGD+M + IKV D +I D KF+TFG
Sbjct: 2 YSDKVFDHFQNPRNVGKIEDAD---GVGTVGNPVCGDLMTIYIKVKD-NRIEDIKFQTFG 57
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNTDIAKEL-CLPPVKLHCSMLAEDAIKAALSDY 168
C +AIA+SS+ATE KGKT++EALK+ +A+ L LP K+HCS LA DA++ A+ DY
Sbjct: 58 CAAAIATSSMATEMAKGKTIEEALKITRDAVAEALGGLPKQKMHCSNLAADALRRAIVDY 117
Query: 169 RIKQNSAKA 177
K
Sbjct: 118 FRKNGKIDK 126
>1su0_B NIFU like protein ISCU; structural genomics, BSGC structure funded
by NI protein structure initiative, PSI; 2.30A
{Streptococcus pyogenes} SCOP: d.224.1.2
Length = 159
Score = 166 bits (422), Expect = 2e-53
Identities = 44/146 (30%), Positives = 65/146 (44%), Gaps = 24/146 (16%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y V DH + P + G LD V + P CGDV+ L +K D+ KI D F G
Sbjct: 10 YMAVVADHSKRPHHHGQLD----GVEAVQLNNPTCGDVISLTVKFDE-DKIEDIAFAGNG 64
Query: 110 CGSAIASSSLATEWVKGKTVDEALKLKNT-------------------DIAKELCLPPVK 150
C + ASSS+ T+ V GK+ +EAL L + ++ + P +
Sbjct: 65 CTISTASSSMMTDAVIGKSKEEALALADIFSEMVQGQENPAQKELGEAELLAGVAKFPQR 124
Query: 151 LHCSMLAEDAIKAALSDYRIKQNSAK 176
+ CS LA +A+K A+ Q+
Sbjct: 125 IKCSTLAWNALKEAIKRSANAQHLTD 150
>2qq4_A Iron-sulfur cluster biosynthesis protein ISCU; zinc binding,
iron-sulfur cluster binding, three conserved Cys, three
beta strands; 1.85A {Thermus thermophilus}
Length = 138
Score = 149 bits (378), Expect = 4e-47
Identities = 45/134 (33%), Positives = 69/134 (51%), Gaps = 22/134 (16%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y E ++DHY++PRN G L + K G P+CGD +++ + ++ I D +F+ G
Sbjct: 8 YREILLDHYQSPRNFGVLPQATKQAG---GMNPSCGDQVEVMVLLEG-DTIADIRFQGQG 63
Query: 110 CGSAIASSSLATEWVKGKTVDEALKL-------------KNTDIAKELCLP-----PVKL 151
C + AS+SL TE VKGK V EAL+L + + L L P ++
Sbjct: 64 CAISTASASLMTEAVKGKKVAEALELSRKFQAMVVEGAPPDPTLGDLLALQGVAKLPARV 123
Query: 152 HCSMLAEDAIKAAL 165
C+ LA A++ AL
Sbjct: 124 KCATLAWHALEEAL 137
>1xjs_A NIFU-like protein; SR17, structure, autostructure, iron-sulfur,
zinc, northeast structural genomics consortium, NESG;
NMR {Bacillus subtilis} SCOP: d.224.1.2 PDB: 2azh_A
Length = 147
Score = 149 bits (378), Expect = 7e-47
Identities = 37/141 (26%), Positives = 69/141 (48%), Gaps = 24/141 (17%)
Query: 50 YHENVIDHYENPRNVGSLDKKDKNVGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
Y + ++DHY+NPRN G L+ + P CGD ++L +K+D + DAKF+ G
Sbjct: 11 YRQVIMDHYKNPRNKGVLNDSI----VVDMNNPTCGDRIRLTMKLDG-DIVEDAKFEGEG 65
Query: 110 CGSAIASSSLATEWVKGKTVDEALK-------------------LKNTDIAKELCLPPVK 150
C ++AS+S+ T+ +KGK ++ AL L + + + + P +
Sbjct: 66 CSISMASASMMTQAIKGKDIETALSMSKIFSDMMQGKEYDDSIDLGDIEALQGVSKFPAR 125
Query: 151 LHCSMLAEDAIKAALSDYRIK 171
+ C+ L+ A++ ++
Sbjct: 126 IKCATLSWKALEKGVAKEEGG 146
>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 = 44.1 bits (103), Expect = 9e-06
Identities = 35/203 (17%), Positives = 60/203 (29%), Gaps = 57/203 (28%)
Query: 2 SILLNKEMKTQLHFK-FSCSLHSSGGTCRTNNAT-----TLLK--SPKWASTPVLHYHEN 53
+ L+ +++ ++ FK F +L C + LL P W S
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNL----KNCNSPETVLEMLQKLLYQIDPNWTSRS------- 217
Query: 54 VIDHYENPR-NVGSLDKKDKNVGTGLVGA--PACGDVMKLQIKVDD--NGKIIDAKFKTF 108
DH N + + S+ + + + L C L + + + N K +A F
Sbjct: 218 --DHSSNIKLRIHSIQAELRRL---LKSKPYENC-----LLV-LLNVQNAKAWNA-FN-L 264
Query: 109 GC---------------GSAIASSSLATEWVKGKTVDEALKL--KNTDIAKELCLPPVKL 151
C +A + T DE L K D + LP L
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ-DLPREVL 323
Query: 152 HCSMLAEDAIKAALSDY--RIKQ 172
+ I ++ D
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDN 346
Score = 32.9 bits (74), Expect = 0.060
Identities = 15/68 (22%), Positives = 25/68 (36%), Gaps = 20/68 (29%)
Query: 4 LLNKEMKTQLHFKFSCSLHSSGGTCRTNNATTLLKSPKWASTPVLHYHENVIDHYENPRN 63
L+ K+ K + + S+ S L K + LH +++DHY P+
Sbjct: 416 LVEKQPK-----ESTISIPS----------IYLELKVKLENEYALH--RSIVDHYNIPKT 458
Query: 64 VGSLDKKD 71
D D
Sbjct: 459 ---FDSDD 463
>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator
11S, hydrolase-HYD activator complex; 1.90A
{Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H
1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H
Length = 217
Score = 32.6 bits (75), Expect = 0.045
Identities = 11/42 (26%), Positives = 21/42 (50%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G ++ + + G GS L +++ + TVDE + L
Sbjct: 121 IDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDL 162
>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_K* 3nzx_K*
Length = 287
Score = 32.0 bits (73), Expect = 0.073
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
VD +G + G G A L + + +V++AL L
Sbjct: 190 VDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL 231
>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L
1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K*
2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K*
3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...
Length = 212
Score = 31.4 bits (72), Expect = 0.096
Identities = 11/42 (26%), Positives = 18/42 (42%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
VD +G + G G A L + + +V++AL L
Sbjct: 115 VDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL 156
>3unf_H Proteasome subunit beta type-10; antigen presentation, drug
development, protein degradation, hydrolase-hydrolase
inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB:
3unh_H
Length = 234
Score = 31.5 bits (72), Expect = 0.10
Identities = 10/42 (23%), Positives = 16/42 (38%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
V +G F G G A + L + T++ A +L
Sbjct: 113 VHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQEL 154
>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N*
3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N*
1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N*
3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ...
Length = 205
Score = 31.0 bits (71), Expect = 0.14
Identities = 5/42 (11%), Positives = 13/42 (30%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+ G + + G GS + + + +E +
Sbjct: 122 IPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDF 163
>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation,
N-terminal nucleophilic HYDR 19S regulatory particle;
HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB:
3nzw_H* 3nzx_H*
Length = 261
Score = 31.2 bits (71), Expect = 0.15
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+ +G + + G GS A + L + W + T +EA+KL
Sbjct: 142 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL 183
>2vgp_C Inner centromere protein A; nucleotide-binding,
serine/threonine-protein kinase, ATP-binding,
transferase, coiled coil, cell division, kinase; HET:
TPO AD6; 1.7A {Xenopus laevis} PDB: 2bfy_C* 2bfx_C*
2vrx_C* 2vgo_C* 3ztx_C*
Length = 43
Score = 28.7 bits (64), Expect = 0.15
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 40 PKWASTPVLHYHENVIDHYENPRNVGSL 67
P WAS +L + + Y P +V +
Sbjct: 2 PAWASGNLLT--QAIRQQYYKPIDVDRM 27
>1iru_L 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_K* 3une_K 3unf_K* 3unh_K
Length = 204
Score = 30.6 bits (70), Expect = 0.16
Identities = 11/42 (26%), Positives = 16/42 (38%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
VD G I + G GS A + + V++A L
Sbjct: 114 VDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDL 155
>1iru_I 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_H* 3une_H
Length = 234
Score = 30.7 bits (70), Expect = 0.16
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+ +G + T G GS A + ++ +EA L
Sbjct: 113 IYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNL 154
>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H*
1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H*
2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H*
3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...
Length = 222
Score = 30.7 bits (70), Expect = 0.21
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+ +G + + G GS A + L + W + T +EA+KL
Sbjct: 113 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKL 154
>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K
1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J*
2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J*
3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...
Length = 198
Score = 30.3 bits (69), Expect = 0.21
Identities = 9/42 (21%), Positives = 15/42 (35%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G ++ + G S L + T +E L L
Sbjct: 119 IDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL 160
>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 = 29.5 bits (65), Expect = 0.37
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 15/39 (38%)
Query: 127 KTVDEALKLKNTDIAKELCLPPVKLHCSMLAEDAIKAAL 165
K + +LKL D A P + AIKA +
Sbjct: 23 KKLQASLKLYADDSA-----PAL----------AIKATM 46
Score = 29.5 bits (65), Expect = 0.40
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 13/42 (30%)
Query: 89 KLQIKVDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVD 130
K +K K+ A K + SA A LA +K T++
Sbjct: 19 KQALK-----KL-QASLKLYADDSAPA---LA---IKA-TME 47
>2i1o_A Nicotinate phosphoribosyltransferase; ZIN ION, zinc finger M
structural genomics, PSI, protein structure initiative;
2.40A {Thermoplasma acidophilum} PDB: 1ytd_A* 1yte_A*
1ytk_A
Length = 398
Score = 30.0 bits (68), Expect = 0.42
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 4/37 (10%)
Query: 74 VGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFGC 110
VGT + A M + V+ NGK K
Sbjct: 297 VGTSISSAKPFDFAMDI---VEVNGKPE-TKRGKMSG 329
>1iru_H 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_N* 3une_N
Length = 205
Score = 29.5 bits (67), Expect = 0.43
Identities = 10/42 (23%), Positives = 18/42 (42%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
V G ++ F G GS+ + + +G T +E L+
Sbjct: 114 VPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQF 155
>3h4p_A Proteasome subunit alpha; core particle, cytoplasm, hydrolase,
protease, threonine protease; 4.10A {Methanocaldococcus
jannaschii}
Length = 264
Score = 29.1 bits (66), Expect = 0.58
Identities = 5/43 (11%), Positives = 9/43 (20%), Gaps = 1/43 (2%)
Query: 94 VDDNGKIIDAK-FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+ I + G S +A + E
Sbjct: 116 LAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPS 158
>2i14_A Nicotinate-nucleotide pyrophosphorylase; ligand binding,
phosphoribosylpyrophosphate, Zn metal ION, structural
genomics, PSI; HET: PCP; 2.90A {Pyrococcus furiosus}
SCOP: c.1.17.1 d.41.2.1
Length = 395
Score = 29.6 bits (67), Expect = 0.59
Identities = 9/36 (25%), Positives = 13/36 (36%), Gaps = 4/36 (11%)
Query: 74 VGTGLVGAPACGDVMKLQIKVDDNGKIIDAKFKTFG 109
VG + A + + V+ GK I AK
Sbjct: 294 VGGAIASAKPVDFALDI---VEVEGKPI-AKRGKLS 325
>1iru_K 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_J* 3une_J 3unf_J* 3unh_J
Length = 201
Score = 29.1 bits (66), Expect = 0.59
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 94 VDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D + A F G G+ + S L + + + A++L
Sbjct: 118 MDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVEL 159
>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB:
3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H*
3h6i_C 3h6f_C 3hf9_H 3mfe_H
Length = 291
Score = 29.1 bits (65), Expect = 0.63
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 2/44 (4%)
Query: 94 VDDNGK--IIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
D G I + ++ G GS A SS+ + + D L++
Sbjct: 180 FDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRV 223
>1q5r_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, hydrolase; 3.10A {Rhodococcus
erythropolis} SCOP: d.153.1.4 PDB: 2h6j_H
Length = 294
Score = 28.4 bits (63), Expect = 1.3
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 94 VDDNGKIIDAK--FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
D G + + + G GS A S+L + + AL+
Sbjct: 188 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRA 231
>4e74_A Plexin-A4; RBD, structural genomics, structural genomics consor
SGC, signaling protein; 1.58A {Homo sapiens} PDB:
3q3j_A*
Length = 117
Score = 27.5 bits (61), Expect = 1.5
Identities = 17/76 (22%), Positives = 32/76 (42%), Gaps = 13/76 (17%)
Query: 99 KIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELCLPPVKLHCSMLAE 158
KI+DA FK C ++ + EW +G + L++ DI ++ +L+
Sbjct: 45 KILDAIFKNVPCSHRPKAADMDLEWRQGSGAR--MILQDEDITTKIENDWKRLNT----- 97
Query: 159 DAIKAALSDYRIKQNS 174
L+ Y++ S
Sbjct: 98 ------LAHYQVPDGS 107
>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 = 28.1 bits (62), Expect = 1.7
Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 45/117 (38%)
Query: 60 NPRNVG-SLDKKDKNVGTGLVGAPACGDVMKLQIKVDDN--GKIIDAKFKTFGCGSAIAS 116
NP V S ++ VG G + ++I V+ N + A
Sbjct: 1813 NPGRVAASFSQEALQYVVERVGK-RTGWL--VEI-VNYNVENQQY-----------VAA- 1856
Query: 117 SSLATEWVKGKT--VDEA------LKLKNTDIAKELCLPPVKLHCSMLAEDAIKAAL 165
G +D +KL+ DI ++L S+ E+ ++ L
Sbjct: 1857 ---------GDLRALDTVTNVLNFIKLQKIDI--------IELQKSLSLEE-VEGHL 1895
>3unf_N Proteasome subunit beta type-9; antigen presentation, drug
development, protein degradation, hydrolase-hydrolase
inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB:
3unh_N
Length = 199
Score = 27.5 bits (62), Expect = 1.8
Identities = 10/45 (22%), Positives = 17/45 (37%)
Query: 91 QIKVDDNGKIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
Q+ G +I F G GS+ + + G T +E +
Sbjct: 110 QVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRF 154
>1j2q_H Proteasome beta subunit; ubiquitin, CP, hydrolase; HET: CIB; 2.83A
{Archaeoglobus fulgidus} SCOP: d.153.1.4
Length = 202
Score = 27.5 bits (62), Expect = 2.2
Identities = 14/43 (32%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 94 VDDNGKIIDAK-FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G I+ K G GS A L + VDEA++L
Sbjct: 114 IDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL 156
>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide,
inter-subunit contacts, RH erythropolis, hydrolase;
2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4
Length = 235
Score = 27.5 bits (61), Expect = 2.4
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 2/44 (4%)
Query: 94 VDDNGKIIDAK--FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
D G + + + G GS A S+L + + AL+
Sbjct: 123 YDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRA 166
>2r2o_A Plexin-B1; effector domain, structural genomics, structural GEN
consortium, SGC, glycoprotein, membrane,
phosphorylation, R secreted, transmembrane; 2.00A {Homo
sapiens} PDB: 2rex_A* 2jph_A
Length = 138
Score = 26.8 bits (59), Expect = 2.6
Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 99 KIIDAKFKTFGCGSAIASSSLATEWVKGKTVDEALKLKNTDIAKELCLPPVKLHCSMLAE 158
K++D +K +L EW G L L + D+ E+ +L+
Sbjct: 59 KMLDQLYKGVPLTQRPDPRTLDVEWRSGVAGH--LILSDEDVTSEVQGLWRRLNT----- 111
Query: 159 DAIKAALSDYRIKQNS 174
L Y++ +
Sbjct: 112 ------LQHYKVPDGA 121
>1iru_J 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_I* 3une_I 3unf_I* 3unh_I
Length = 205
Score = 26.0 bits (58), Expect = 6.0
Identities = 6/43 (13%), Positives = 11/43 (25%), Gaps = 1/43 (2%)
Query: 94 VDDNGKIIDAK-FKTFGCGSAIASSSLATEWVKGKTVDEALKL 135
+D G + F G + + W D +
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFET 166
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
0.315 0.129 0.380
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,659,283
Number of extensions: 149232
Number of successful extensions: 348
Number of sequences better than 10.0: 1
Number of HSP's gapped: 333
Number of HSP's successfully gapped: 40
Length of query: 179
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 92
Effective length of database: 4,272,666
Effective search space: 393085272
Effective search space used: 393085272
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: 54 (24.7 bits)