RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1374
(263 letters)
>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 = 39.8 bits (92), Expect = 7e-04
Identities = 43/319 (13%), Positives = 98/319 (30%), Gaps = 77/319 (24%)
Query: 9 LDPALVRPGRVDLKEYIGFCSRHQLEQMYKRFYQDVDN------ASKFADQAK------- 55
+D ++ V + + + E+M ++F ++V S + +
Sbjct: 51 IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110
Query: 56 ----------------KKKNFRRKKKKKTKKKKKKKKTKKKN-RRHYM-------ITLEI 91
K N R + ++ + KN + + L++
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDV 170
Query: 92 PCRDKSYHWLL----HWITVRGAKKTQHL--SVETSFEKFDTGYVKTKYDFIPSIGTHLF 145
C + W+ ++ + + ++ + D + ++ D +I +
Sbjct: 171 -CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW-TSRSDHSSNIKLRIH 228
Query: 146 SYQGNWIRVERSRE-STTLDIQQGIPWETVTLTAFG---------RDRSLF--------F 187
S Q R+ +S+ L + + AF R + +
Sbjct: 229 SIQAELRRLLKSKPYENCLLVLLNV-QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT 287
Query: 188 NILEEARTLALKQYEGKTVMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILADIRQF 247
+I + ++ L E K+++ L RP P+ N L S +A IR
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDC--RPQDLPREVLTTNPRRL-SIIA----ESIRDG 340
Query: 248 VADPAW----YLDRGKQNR 262
+A W +++ K
Sbjct: 341 LA--TWDNWKHVNCDKLTT 357
Score = 31.7 bits (71), Expect = 0.27
Identities = 47/294 (15%), Positives = 79/294 (26%), Gaps = 89/294 (30%)
Query: 4 QALTILDP-------ALVR--PGRVD---------LKEYIGFCSRHQLEQMYKRFYQDVD 45
+ LT +P +R D L I Y++ + +
Sbjct: 321 EVLTT-NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL- 378
Query: 46 NASKFADQAK------------KKKNFRRKKKKKTKKKKKKKKTKKKNRRH-YMITLEI- 91
S F A K+ K K +K K++ I LE+
Sbjct: 379 --SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 92 -PCRDKSYHWLLHWITVRGAKKTQHLSVETSFEKFDTGYVKTKYDFIPSIGTHLFSYQGN 150
++ LH V + + + Y Y I G HL + +
Sbjct: 437 VKLENEYA---LHRSIVDHYNIPKTFDSDDLIPPYLDQYF---YSHI---GHHLKNIE-- 485
Query: 151 WIRVERSRESTT--LD---IQQGIPWETVTLTAFGRDRSLFFNILEEARTLALKQYEGKT 205
ER LD ++Q I ++ A G N L++ LK Y+
Sbjct: 486 --HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGS----ILNTLQQ-----LKFYKP-- 532
Query: 206 VMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILADIRQFVADPAWYLDRGK 259
Y + + +R++ I F+ L K
Sbjct: 533 --Y---------------------ICDNDPKYERLVNAILDFLPKIEENLICSK 563
Score = 29.4 bits (65), Expect = 1.4
Identities = 30/211 (14%), Positives = 63/211 (29%), Gaps = 55/211 (26%)
Query: 34 EQMYKRFYQDV--DNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEI 91
E Y+ Y+D+ F NF K + K K+ +
Sbjct: 13 EHQYQ--YKDILSVFEDAF------VDNFDCKDVQDMPKSILSKEEIDH-------IIMS 57
Query: 92 PCRDKSYHWLLHWITVRGAKKTQHLSVETSFEKFDTGYVKTKYDFI----------PSIG 141
L W + ++ +KF ++ Y F+ PS+
Sbjct: 58 KDAVSGTLRLF-WTLLSKQEEM--------VQKFVEEVLRINYKFLMSPIKTEQRQPSMM 108
Query: 142 THLFSYQGN--------WIRVERSRESTTLDIQQGI----PWETVTL---TAFGRDRSLF 186
T ++ Q + + + SR L ++Q + P + V + G+ +
Sbjct: 109 TRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK-TWV- 166
Query: 187 FNILEEARTLALKQYEGKTVMYTALGSEWRP 217
L+ + ++ + + L + P
Sbjct: 167 --ALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 35.3 bits (82), Expect = 0.013
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 1 MSTQALTILDPALVRPGRVDLKEYIG 26
+T ILDPA++RPGR D +
Sbjct: 161 GATNRPDILDPAILRPGRFDRIIEVP 186
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 34.9 bits (81), Expect = 0.018
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 8 ILDPALVRPGRVDLKEYIG 26
I+DPA++RPGR+D YI
Sbjct: 166 IIDPAILRPGRLDQLIYIP 184
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 34.1 bits (79), Expect = 0.028
Identities = 10/19 (52%), Positives = 16/19 (84%)
Query: 8 ILDPALVRPGRVDLKEYIG 26
I+DPA++RPGR+D ++G
Sbjct: 158 IIDPAILRPGRLDKTLFVG 176
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 34.8 bits (80), Expect = 0.031
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 8 ILDPALVRPGRVDLKEYIG 26
I+DPA++RPGR+D YI
Sbjct: 628 IIDPAILRPGRLDQLIYIP 646
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 33.2 bits (76), Expect = 0.068
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 1 MSTQALTILDPALVRPGRVDLKEYI 25
++ + L L+R GR++ +
Sbjct: 160 VTGNDFSTLYAPLIRDGRMEKFYWA 184
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 33.3 bits (77), Expect = 0.072
Identities = 11/13 (84%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
ILDPAL+RPGR D
Sbjct: 166 ILDPALLRPGRFD 178
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 33.3 bits (77), Expect = 0.075
Identities = 11/13 (84%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
ILDPAL+RPGR D
Sbjct: 181 ILDPALLRPGRFD 193
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 32.6 bits (75), Expect = 0.088
Identities = 11/13 (84%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
ILDPAL+RPGR D
Sbjct: 163 ILDPALMRPGRFD 175
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 32.3 bits (74), Expect = 0.10
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 8 ILDPALVRPGRVDLKEYIG 26
ILDPAL+RPGR D + I
Sbjct: 166 ILDPALLRPGRFDRQIAID 184
>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_V 4a1c_V 4a1e_V
Length = 239
Score = 32.4 bits (73), Expect = 0.11
Identities = 6/36 (16%), Positives = 16/36 (44%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLE 90
KK + +K K +++K K+ + ++ +
Sbjct: 11 KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQ 46
Score = 26.7 bits (58), Expect = 7.4
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
++ +K K +RK K++K + K +
Sbjct: 14 ARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQK 47
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 32.6 bits (75), Expect = 0.11
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
ILD AL+RPGR+D
Sbjct: 157 ILDGALMRPGRLD 169
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 32.3 bits (74), Expect = 0.11
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
+LDPAL+RPGR D
Sbjct: 162 VLDPALLRPGRFD 174
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 32.6 bits (74), Expect = 0.11
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 42 QDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKK 79
+++ + D + KK KKKKKK+ K
Sbjct: 74 SALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 28.0 bits (62), Expect = 3.3
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 45 DNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKN 81
D D+ KKK KKKKK+ + +
Sbjct: 78 DKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKVQTD 114
Score = 27.6 bits (61), Expect = 5.5
Identities = 8/40 (20%), Positives = 16/40 (40%)
Query: 42 QDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKN 81
+ ++ ++ + + KKKKKK KK+
Sbjct: 69 RQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRG 108
>3izc_e 60S ribosomal protein RPL7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
3izs_e 3o58_G 3o5h_G 3u5e_F 3u5i_F
Length = 244
Score = 32.1 bits (72), Expect = 0.13
Identities = 6/36 (16%), Positives = 15/36 (41%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLE 90
KK K ++ ++ ++ +K K+ R +
Sbjct: 14 KKSKAQQKTAEQVAAERAARKAANKEKRAIILERNA 49
Score = 26.7 bits (58), Expect = 8.0
Identities = 5/31 (16%), Positives = 13/31 (41%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKK 79
K + ++ R +K K+K+ ++
Sbjct: 17 KAQQKTAEQVAAERAARKAANKEKRAIILER 47
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 32.3 bits (74), Expect = 0.13
Identities = 11/13 (84%), Positives = 12/13 (92%)
Query: 8 ILDPALVRPGRVD 20
ILDPAL+RPGR D
Sbjct: 190 ILDPALLRPGRFD 202
>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 = 31.9 bits (72), Expect = 0.14
Identities = 5/9 (55%), Positives = 6/9 (66%)
Query: 212 GSEWRPFGH 220
SEWR F +
Sbjct: 60 RSEWRTFSN 68
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 31.7 bits (71), Expect = 0.15
Identities = 13/57 (22%), Positives = 22/57 (38%), Gaps = 6/57 (10%)
Query: 34 EQMYK-RFYQDVDNASKFADQAKKKKNFRRKKKKK-----TKKKKKKKKTKKKNRRH 84
E + K R Q A ++ +R K KK ++ ++ +K K NR
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIA 141
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 270
Score = 31.8 bits (71), Expect = 0.19
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLE 90
KK++NF K K+ +KK K +K R+ +
Sbjct: 42 KKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAK 77
Score = 27.5 bits (60), Expect = 4.5
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
+ + K K+ ++ K +K ++K +K H
Sbjct: 45 RNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHYH 80
>3iz5_e 60S ribosomal protein L7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_e
Length = 244
Score = 31.3 bits (70), Expect = 0.24
Identities = 6/36 (16%), Positives = 13/36 (36%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLE 90
K++ +K +K +K +N + E
Sbjct: 16 LKRRREEVWAAEKKQKVAAEKIKAAENTKVIYARAE 51
Score = 27.5 bits (60), Expect = 4.9
Identities = 7/41 (17%), Positives = 13/41 (31%)
Query: 51 ADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEI 91
KK+K K K K + ++ + E+
Sbjct: 24 WAAEKKQKVAAEKIKAAENTKVIYARAEQYAGEYEAQDKEL 64
Score = 26.7 bits (58), Expect = 7.0
Identities = 3/36 (8%), Positives = 11/36 (30%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
+ + +K + +K + K + +
Sbjct: 19 RREEVWAAEKKQKVAAEKIKAAENTKVIYARAEQYA 54
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 31.0 bits (69), Expect = 0.33
Identities = 11/70 (15%), Positives = 22/70 (31%), Gaps = 7/70 (10%)
Query: 21 LKEYIGFCSRHQLEQMYKRFYQDVDNASKFADQAK-------KKKNFRRKKKKKTKKKKK 73
+ +YI L + K + + + K K+++ + K K KK
Sbjct: 237 ISDYIPKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKK 296
Query: 74 KKKTKKKNRR 83
K +
Sbjct: 297 NSKMTAAQKA 306
Score = 31.0 bits (69), Expect = 0.36
Identities = 11/79 (13%), Positives = 24/79 (30%), Gaps = 2/79 (2%)
Query: 5 ALTILDPALVRPGRVDLKEYIGF--CSRHQLEQMYKRFYQDVDNASKFADQAKKKKNFRR 62
A ++ + + DL +++ K+ + D K +
Sbjct: 233 AHGLISDYIPKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLK 292
Query: 63 KKKKKTKKKKKKKKTKKKN 81
KK +K +K K +
Sbjct: 293 TGKKNSKMTAAQKALAKVD 311
Score = 28.3 bits (62), Expect = 2.5
Identities = 9/44 (20%), Positives = 14/44 (31%)
Query: 38 KRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKN 81
K + V+ + K +K K T +K K K
Sbjct: 271 KLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSG 314
>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin
assembly, protein binding; 2.55A {Homo sapiens} PDB:
2z6e_A
Length = 483
Score = 30.6 bits (69), Expect = 0.50
Identities = 8/46 (17%), Positives = 24/46 (52%)
Query: 35 QMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
Q Q+ +N K ++ +++ + K++ ++++K +K K+
Sbjct: 386 QAVSEAKQENENMRKKKEEEERRARMEAQLKEQRERERKMRKAKEN 431
Score = 28.7 bits (64), Expect = 2.0
Identities = 10/46 (21%), Positives = 25/46 (54%)
Query: 38 KRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
+F Q V A + + +KKK ++ + + K++++ ++K R+
Sbjct: 382 DQFLQAVSEAKQENENMRKKKEEEERRARMEAQLKEQRERERKMRK 427
>3iz6_V 40S ribosomal protein S25 (S25E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Length = 108
Score = 29.2 bits (65), Expect = 0.54
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 53 QAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
+ K + K K+KKKK +K K +
Sbjct: 5 KDKAPPPSSKPAKSGGGKQKKKKWSKGKQK 34
Score = 28.4 bits (63), Expect = 0.95
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 52 DQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEIPCRDK 96
D+A + K +KKKK K K+K + + + + DK
Sbjct: 6 DKAPPPSSKPAKSGGGKQKKKKWSKGKQKEKVNNSVLFDKATYDK 50
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 30.1 bits (68), Expect = 0.74
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 52 DQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
QA K+ RR+ ++K ++ K K+ +K R
Sbjct: 306 LQAVKENQKRRETEEKMRRAKLAKEKAEKERL 337
Score = 29.3 bits (66), Expect = 1.3
Identities = 8/46 (17%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 35 QMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
F A K + ++ + + ++ K K+K +K++ +K+
Sbjct: 296 MDLHNFRNMFLQAVKENQKRRETEE-KMRRAKLAKEKAEKERLEKQ 340
>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 190
Score = 29.5 bits (65), Expect = 0.76
Identities = 9/55 (16%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 33 LEQMYKRFYQDVDNASKFAD----QAKKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
E++ RF ++V A + + + RK+K + K+ +++ +
Sbjct: 107 EERLLNRFRREVMRAGVIQECKRRRFFENTQDVRKRKTREAAKRNRRRRPQARFT 161
>3iz5_G 60S ribosomal protein L6 (L6E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_G
Length = 219
Score = 29.6 bits (66), Expect = 0.93
Identities = 5/33 (15%), Positives = 10/33 (30%)
Query: 53 QAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHY 85
++ + K K K +K + Y
Sbjct: 19 TYHRRGLWAIKAKHGGALPKAEKPAAIAEPKFY 51
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design,
malaria, PDF, peptide DEFO plasmodium, hydrolase; HET:
BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1
PDB: 1rqc_A 1jym_A
Length = 188
Score = 29.0 bits (66), Expect = 1.0
Identities = 5/29 (17%), Positives = 11/29 (37%)
Query: 57 KKNFRRKKKKKTKKKKKKKKTKKKNRRHY 85
K R K + + K + + + H+
Sbjct: 160 DKKKVRPKLNELIRDYKATHSLEHHHHHH 188
Score = 28.7 bits (65), Expect = 1.3
Identities = 6/29 (20%), Positives = 10/29 (34%)
Query: 56 KKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
KK R K + + K + + H
Sbjct: 160 DKKKVRPKLNELIRDYKATHSLEHHHHHH 188
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 29.8 bits (67), Expect = 1.1
Identities = 10/19 (52%), Positives = 12/19 (63%)
Query: 8 ILDPALVRPGRVDLKEYIG 26
+DPAL R GR D + IG
Sbjct: 352 SIDPALRRFGRFDREVDIG 370
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 297
Score = 29.2 bits (65), Expect = 1.2
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 33 LEQMYKRFYQDVDNASKFADQAKKK-KNFRRKKKKKTKKKKKKKKTKKKN 81
+E+MYK+ + + + + KK+ K R + K + +KK + +KK
Sbjct: 236 MEEMYKKAHAAIRENPVYEKKPKKEVKKKRWNRPKMSLAQKKDRVAQKKA 285
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine
proteinase, wild type, viral protein; 2.38A {Sindbis
virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 29.4 bits (65), Expect = 1.2
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 51 ADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
+ KK+ + K KK K ++KKKK K +
Sbjct: 68 PPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTK 99
Score = 27.1 bits (59), Expect = 6.7
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
+KK+ ++ K K K ++KKK + +
Sbjct: 71 QKKQAPKQPPKPKKPKPQEKKKKQPAKTK 99
>3pe5_A Uncharacterized protein; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; 2.38A {Clostridium leptum}
Length = 403
Score = 29.2 bits (65), Expect = 1.4
Identities = 4/34 (11%), Positives = 12/34 (35%)
Query: 47 ASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
+++ + + + R K K+ +K
Sbjct: 3 SNRRYQEPQNRDISSRSNGKNPFKRSTGRKVSNV 36
Score = 28.0 bits (62), Expect = 3.2
Identities = 5/34 (14%), Positives = 11/34 (32%)
Query: 47 ASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
AS Q + ++ + K K+ +
Sbjct: 2 ASNRRYQEPQNRDISSRSNGKNPFKRSTGRKVSN 35
Score = 27.2 bits (60), Expect = 6.2
Identities = 7/41 (17%), Positives = 17/41 (41%)
Query: 51 ADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEI 91
+++ ++ R + K K+ T +K +I L +
Sbjct: 3 SNRRYQEPQNRDISSRSNGKNPFKRSTGRKVSNVIIIILCV 43
>3i1m_U 30S ribosomal protein S21; ribosome structure, protein-RNA
complex, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA-binding, antibiotic resistance; 3.19A
{Escherichia coli k-12} PDB: 1vs7_U* 2avy_U 2aw7_U
2vho_U 2vhp_U 3df1_U* 3df3_U* 3e1a_Q 3e1c_Q 1vs5_U
3i1o_U 3i1q_U 3i1s_U 3i1z_U 3i21_U 3izv_Y* 3izw_Y*
3kc4_U 3or9_U 3ora_U ...
Length = 71
Score = 27.1 bits (60), Expect = 1.5
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 33 LEQMYKRFYQDVDNASKFADQAKK----KKNFRRKKKKKTKKKKKKKKTKKKNRR 83
+ +RF + + A A+ ++ K RK+ K + K+ KK ++N R
Sbjct: 12 FDVALRRFKRSCEKAGVLAEVRRREFYEKPTTERKRAKASAVKRHAKKLARENAR 66
>1f2n_A Capsid protein; plant virus, coat protein, beta-annulus, domain
swapping, X-RAY diffraction, icosahedral virus; 2.80A
{Rice yellow mottle virus} SCOP: b.121.4.7
Length = 238
Score = 28.4 bits (62), Expect = 1.9
Identities = 16/105 (15%), Positives = 29/105 (27%), Gaps = 26/105 (24%)
Query: 62 RKKKKKTKKKKKKKKTKKKNRRH---------------YMITLEIPCRDKSYHWLLHWIT 106
RK KK + ++ K K + R I+ +P
Sbjct: 2 RKGKKTNSNQGQQGKRKSRRPRGRSAEPQLQRAPVAQASRISGTVPG-----------PL 50
Query: 107 VRGAKKTQHLSVETSFEKFDTGYVKTKYDFIPSIGTHLFSYQGNW 151
+ F++ T T YD +P ++S +
Sbjct: 51 SSNTWPLHSVEFLADFKRSSTSADATTYDCVPFNLPRVWSLARCY 95
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 28.5 bits (63), Expect = 2.0
Identities = 10/50 (20%), Positives = 20/50 (40%)
Query: 33 LEQMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
LE +Y ++ + F KK + + K ++ K K ++ R
Sbjct: 236 LEDIYTSAHEAIRADPAFKPTEKKFTKEQYAAESKKYRQTKLSKEERAAR 285
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 28.7 bits (63), Expect = 2.1
Identities = 11/27 (40%), Positives = 12/27 (44%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKK 80
K KK KK TKK KK +K
Sbjct: 384 KKPKKPVVGKKAAATKKPAADKKPAEK 410
Score = 27.9 bits (61), Expect = 3.9
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKK 80
KK ++ KK KK KK KK
Sbjct: 368 PGKKPRRKKGKKTVGVKKPKKPVVGKK 394
Score = 27.5 bits (60), Expect = 4.7
Identities = 9/37 (24%), Positives = 11/37 (29%)
Query: 46 NASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
K KK K KK KK K + +
Sbjct: 375 KKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEKK 411
Score = 27.1 bits (59), Expect = 7.3
Identities = 11/27 (40%), Positives = 12/27 (44%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKK 80
KK R+K KK KK KK K
Sbjct: 367 VPGKKPRRKKGKKTVGVKKPKKPVVGK 393
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 27.7 bits (61), Expect = 2.2
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
K KK K +K K KKK +R
Sbjct: 2 PPKTSGKAAKKAGKAQKNITKTDKKKKRKRK 32
Score = 25.8 bits (56), Expect = 7.8
Identities = 9/34 (26%), Positives = 14/34 (41%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMI 87
K ++ K + K KK K+K + Y I
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKESYAI 37
>3rg0_A Calreticulin; beta-sandwich, chaperone, monoglucosylated proteins
binding, carbohydrate binding, calcium binding,
endoplasmic reticulu; 2.57A {Mus musculus}
Length = 332
Score = 28.5 bits (63), Expect = 2.3
Identities = 7/42 (16%), Positives = 18/42 (42%)
Query: 43 DVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
D A +F ++ K+ K + ++++ K + + H
Sbjct: 291 DEAYAEEFGNETWGVTKAAEKQMKDKQDEEQRLKLEHHHHHH 332
>3u5c_Z RP45, S31, YS23, 40S ribosomal protein S25-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3izb_V 3o30_Q 3o2z_Q
3u5g_Z
Length = 108
Score = 27.3 bits (60), Expect = 2.6
Identities = 11/45 (24%), Positives = 16/45 (35%)
Query: 52 DQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEIPCRDK 96
Q K K KKK K K+R + + L+ D+
Sbjct: 5 QQLSKAAKAAAALAGGKKSKKKWSKKSMKDRAQHAVILDQEKYDR 49
>1z57_A Dual specificity protein kinase CLK1; protein tyrosine kinase,
splicing, human, 10Z-hymendialdisine, structural
genomics; HET: DBQ; 1.70A {Homo sapiens} PDB: 2vag_A*
Length = 339
Score = 28.4 bits (64), Expect = 2.7
Identities = 5/43 (11%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 48 SKFADQAKKKKNFRRKKKKKTKKKKKKKKTKK--KNRRHYMIT 88
+ +K+K F + + + + K + +M++
Sbjct: 255 KHMIQKTRKRKYFHHDRLDWDEHSSAGRYVSRACKPLKEFMLS 297
>2xzm_8 RPS25E,; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_8
Length = 143
Score = 27.4 bits (60), Expect = 2.8
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
K +KK K + KK KKK TK K +
Sbjct: 3 KQPAAGQKKTKEAIAKAAQAKKGGKKKWTKGKAK 36
Score = 26.7 bits (58), Expect = 5.0
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 51 ADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMITLEIPCRDK 96
A Q K K+ + + K KKK K K K++ ++ + +E +
Sbjct: 7 AGQKKTKEAIAKAAQAKKGGKKKWTKGKAKDKVNHAVFIEKKNVES 52
>3u5c_X RP37, S28, YS14, 40S ribosomal protein S23-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3izb_L 3o30_P 3o2z_P
3u5g_X 3jyv_L* 1s1h_L* 2zkq_l 3iz6_L
Length = 145
Score = 27.4 bits (60), Expect = 3.1
Identities = 6/31 (19%), Positives = 10/31 (32%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
A+K + RR + KK+
Sbjct: 12 ARKLRVHRRNNRWAENNYKKRLLGTAFKSSP 42
>3qc1_A Immunoglobulin-binding protein 1; PP2A, signaling protein; 2.35A
{Mus musculus}
Length = 243
Score = 27.8 bits (61), Expect = 3.6
Identities = 10/78 (12%), Positives = 28/78 (35%), Gaps = 5/78 (6%)
Query: 14 VRPGRVDLKEYIGFCSRHQL-----EQMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKT 68
++ R ++ C + + Q ++ +S A +R+ K +
Sbjct: 123 LQRAREHFVHFLTQCHCYHVAEFQLPQTKTNSAENNTASSSMAYPNLVAMASQRQAKIER 182
Query: 69 KKKKKKKKTKKKNRRHYM 86
K+KK+ + + + +
Sbjct: 183 YKQKKEVEHRLSALKSAV 200
>2hvy_B GAR1, small nucleolar RNP similar to GAR1; H/ACA RNA, RNP,
pseudouridine synthase, guide RNA, isomerase
biosynthetic protein-RNA complex; HET: ATP; 2.30A
{Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3hay_B*
Length = 104
Score = 26.5 bits (58), Expect = 3.8
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 43 DVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNR 82
V N + + +RK+ K K+K+ KK K+ NR
Sbjct: 65 KVSNPEIYVGEVLYVDERKRKESPKKNKEKRMKKKKRLNR 104
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D
3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D
3azj_D 3azk_D 3azl_D 3azm_D ...
Length = 126
Score = 27.1 bits (59), Expect = 4.0
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
AK ++ KK K +KK K+K R
Sbjct: 5 AKSAPAPKKGSKKAVTKTQKKGDKKRKKSRK 35
>1914_A Signal recognition particle 9/14 fusion protein; ALU domain, RNA
binding, signal recognition particle (SRP), translation
regulation; 2.53A {Mus musculus} SCOP: d.49.1.1 d.49.1.1
PDB: 1e8o_A* 1e8s_A 1ry1_C*
Length = 232
Score = 27.3 bits (60), Expect = 4.3
Identities = 8/46 (17%), Positives = 17/46 (36%)
Query: 39 RFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
+F N + KK++ + K KK + ++K +
Sbjct: 97 KFQMAYSNLLRANMDGLKKRDKKNKSKKSKPAQGGEQKLISEEDDS 142
>1uw0_A DNA ligase III; DNA repair, zinc finger, PARP-like finger, cell
division, DNA replication, nuclear protein; HET: DNA;
NMR {Homo sapiens} SCOP: g.39.1.12
Length = 117
Score = 26.6 bits (58), Expect = 4.4
Identities = 5/32 (15%), Positives = 12/32 (37%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
+ ++ + ++ K KKK + K
Sbjct: 83 EDNEKEQITQHIADLSSKAAGTPKKKAVVQAK 114
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol
protease, UBL conjugation pathway, metal-binding,
zinc-finger,structural genomics; 2.80A {Homo sapiens}
Length = 854
Score = 27.9 bits (61), Expect = 4.4
Identities = 6/60 (10%), Positives = 20/60 (33%), Gaps = 6/60 (10%)
Query: 19 VDLKEYIGFCSRHQLEQMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTK 78
+ + ++GF ++ + + + + ++ T +KK T+
Sbjct: 64 ICMNTFLGFGKQY------VERHFNKTGQRVYLHLRRTRRPKEEDPATGTGDPPRKKPTR 117
>1dgu_A Calcium-saturated CIB; helical, EF-hands, blood clotting; NMR
{Homo sapiens} SCOP: a.39.1.5 PDB: 1dgv_A 1xo5_A
1y1a_A*
Length = 183
Score = 27.0 bits (60), Expect = 4.5
Identities = 2/37 (5%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 20 DLKEYIGFCSRHQLEQMYKRFYQDVDNASKFADQAKK 56
+ ++ ++ ++ ++RF + + + + + +
Sbjct: 7 EYQDLTFL-TKQEILLAHRRFCELLPQEQRSVESSLR 42
>2ctr_A DNAJ homolog subfamily B member 9; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 88
Score = 26.1 bits (58), Expect = 4.9
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 4/50 (8%)
Query: 36 MYKRFYQDVDNASKFADQAKKKKNFRRKKKK----KTKKKKKKKKTKKKN 81
Y D+ K A + + KK F + K K K + K ++
Sbjct: 4 GSSGSYYDILGVPKSASERQIKKAFHKLAMKYHPDKNKSPDAEAKFREIA 53
>3obv_E Protein diaphanous homolog 1; autoinhibition, actin, nucleation,
cytoskeleton, structural; HET: SUC; 2.75A {Mus musculus}
PDB: 3o4x_E 2bap_D
Length = 457
Score = 27.5 bits (61), Expect = 5.0
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 52 DQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
QA K+ RR+ ++K ++ K K+ +K R
Sbjct: 377 LQAVKENQKRRETEEKMRRAKLAKEKAEKERL 408
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 140
Score = 26.5 bits (59), Expect = 5.5
Identities = 4/28 (14%), Positives = 8/28 (28%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKN 81
AK ++ + +K K
Sbjct: 2 AKPIPKIGSRRNGRISSRKSASARKIPK 29
>1h54_A Maltose phosphorylase; hydrolase, maltose metabolism; 2.15A
{Lactobacillus brevis} SCOP: a.102.1.4 b.30.5.3
Length = 754
Score = 27.4 bits (60), Expect = 5.6
Identities = 6/41 (14%), Positives = 13/41 (31%), Gaps = 3/41 (7%)
Query: 145 FSYQGNWIRVERSRESTTLDIQQGIPWETVTLTAFGRDRSL 185
++ I V + + G E +T+ G +
Sbjct: 713 QVFRDRLIEVSVHADGPHFKLLSG---EPLTIDVAGAAAAA 750
>3vuv_A Erythrocyte membrane protein, putative; duffy binding-like domain,
erythrocyte binding, merozoite SU malaria, cell
adhesion; 2.11A {Plasmodium falciparum}
Length = 339
Score = 27.2 bits (60), Expect = 5.7
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 2/44 (4%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMIT--LEIPCRDK 96
K+K + + K K K + Y+I E C K
Sbjct: 285 KRKTEWTEQSIKYNNDKINYTDIKTLSPSEYLIEKCPECKCTKK 328
>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A
{Rhodothermus marinus}
Length = 261
Score = 27.0 bits (60), Expect = 5.7
Identities = 5/47 (10%), Positives = 18/47 (38%), Gaps = 4/47 (8%)
Query: 35 QMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKN 81
+ + + D S A++ R++ + + + +++N
Sbjct: 219 ERLLQIFPD----SPLLRTAEELYTRARQRLTELEGDASLAQGQRQN 261
>3iz5_N 60S ribosomal protein L14 (L14E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_N
Length = 134
Score = 25.4 bits (56), Expect = 5.8
Identities = 1/37 (2%), Positives = 5/37 (13%), Gaps = 1/37 (2%)
Query: 61 RRKKKKKTKKKKKKKKTKKKNR-RHYMITLEIPCRDK 96
K + + + +
Sbjct: 16 NYGKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKR 52
>2l4h_A Calcium and integrin-binding protein 1; metal binding protei; NMR
{Homo sapiens} PDB: 2l4i_A 2lm5_A
Length = 214
Score = 27.1 bits (60), Expect = 5.9
Identities = 2/37 (5%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 20 DLKEYIGFCSRHQLEQMYKRFYQDVDNASKFADQAKK 56
+ ++ ++ ++ ++RF + + + + + +
Sbjct: 38 EYQDLTFL-TKQEILLAHRRFCELLPQEQRSVESSLR 73
>1o94_A Tmadh, trimethylamine dehydrogenase; electron transport, protein
complex; HET: FMN ADP AMP; 2.0A {Methylophilus
methylotrophus} SCOP: c.1.4.1 c.3.1.1 c.4.1.1 PDB:
1djn_A* 1o95_A* 2tmd_A* 1djq_A*
Length = 729
Score = 27.3 bits (61), Expect = 6.4
Identities = 9/24 (37%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 231 VLDSGVADRI-LADIRQFVADPAW 253
++ G AD I A R +ADP
Sbjct: 309 IVTKGYADIIGCA--RPSIADPFL 330
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A
{Helicobacter pylori} PDB: 2ew6_A* 2ew7_A
Length = 181
Score = 26.7 bits (60), Expect = 6.8
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 57 KKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
K+ K+ K+ +KK+K K + + H
Sbjct: 155 KRKKFEKELKELQKKQKHKL-EHHHHHH 181
>1v3y_A Peptide deformylase; protein synthesis, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP:
d.167.1.1
Length = 192
Score = 26.4 bits (59), Expect = 7.3
Identities = 5/37 (13%), Positives = 14/37 (37%), Gaps = 5/37 (13%)
Query: 44 VDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
+ K K++ F + + + +K+ + K
Sbjct: 156 FERLPKP-----KREAFLEANRAELVRFQKEARALLK 187
>3vuu_A Erythrocyte membrane protein, putative; duffy binding-like domain,
erythrocyte binding, merozoite SU malaria, cell
adhesion; 2.09A {Plasmodium falciparum}
Length = 305
Score = 26.7 bits (59), Expect = 7.7
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 2/44 (4%)
Query: 55 KKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMIT--LEIPCRDK 96
K+K + + K K K + Y+I E C K
Sbjct: 251 KRKTEWTEQSIKYNNDKINYTDIKTLSPSEYLIEKCPECKCTKK 294
>3iyj_F Major capsid protein L1; bovine papillomavirus BPV1, single
cryo-EM, high resolution, late protein, VIR virus; 4.20A
{Bovine papillomavirus type 1}
Length = 495
Score = 27.1 bits (60), Expect = 8.0
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 18/65 (27%)
Query: 19 VDLKEYIGFCSRHQLEQMYKRFYQDVDNAS---KFADQAKKKKNFRRKKKKKTKKKKKKK 75
+DLKE + D+D +F Q + RK++ K K
Sbjct: 446 IDLKE---------------KLSLDLDQFPLGRRFLAQQGAGCSTVRKRRISQKTSSKPA 490
Query: 76 KTKKK 80
K KKK
Sbjct: 491 KKKKK 495
>3k30_A Histamine dehydrogenase; 6-S-cysteinyl-FMN, ADP binding site,
oxidoreductase; HET: FMN ADP; 2.70A {Pimelobacter
simplex}
Length = 690
Score = 26.9 bits (60), Expect = 8.3
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 231 VLDSGVADRI-LADIRQFVADPAW 253
+ +G+ D I A R +ADP
Sbjct: 312 QIKAGILDLIGAA--RPSIADPFL 333
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 26.2 bits (57), Expect = 8.4
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 54 AKKKKNFRRKKKKKTKKKKKKKKTKKKNRRH 84
+ +K R + + K+ KK K+ KK
Sbjct: 98 PEVRKAQREQAIRAAKEAKKAKQASKKTAMA 128
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY
crystallography, putative translation factor, PSI,
protein structure initiative; 1.40A {Escherichia coli}
SCOP: d.115.1.1 PDB: 1kk9_A
Length = 206
Score = 26.3 bits (59), Expect = 8.5
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 5/24 (20%)
Query: 7 TILD-----PALVRPGRVDLKEYI 25
T++D P +VR G D+K ++
Sbjct: 183 TVIDLTDDTPVVVREGVGDVKPFL 206
>3kfv_A Tight junction protein ZO-3; structural genomics consortium, SGC,
cell junction, cell membrane, membrane, SH3 domain;
2.80A {Homo sapiens}
Length = 308
Score = 26.7 bits (58), Expect = 8.8
Identities = 9/70 (12%), Positives = 19/70 (27%), Gaps = 3/70 (4%)
Query: 29 SRHQLEQMYKRFYQDVDNASKFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRRHYMIT 88
++ + EQ+ A + + ++ KK + R +
Sbjct: 68 NQSRAEQLASLEAAQRAVGVGPGSSAGSNARAEFWRLRGLRRGAKK---TTQRSREDLSA 124
Query: 89 LEIPCRDKSY 98
L R Y
Sbjct: 125 LTRQGRYPPY 134
>3u5c_Y RP50, 40S ribosomal protein S24-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_U* 3j16_D 3u5g_Y
Length = 135
Score = 26.1 bits (57), Expect = 8.9
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 53 QAKKKKNFRRKKKKKTKKKKKKKKTKKK 80
Q K+KKN R KK T K+ KK ++
Sbjct: 107 QRKQKKN-RDKKIFGTGKRLAKKVARRN 133
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 26.5 bits (59), Expect = 9.6
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 231 VLDSGVADRI-LADIRQFVADPAW 253
+L G AD + +A R F+AD
Sbjct: 298 ILSRGDADMVSMA--RPFLADAEL 319
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_C 4a1c_C 4a1e_C
Length = 410
Score = 26.7 bits (58), Expect = 9.9
Identities = 8/35 (22%), Positives = 13/35 (37%)
Query: 49 KFADQAKKKKNFRRKKKKKTKKKKKKKKTKKKNRR 83
K + KK K K++ K +K K +
Sbjct: 338 KIVKEQAKKAAEASKAKRQATLKANRKAAKTHKKG 372
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
0.321 0.135 0.409
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,098,031
Number of extensions: 240127
Number of successful extensions: 2411
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1960
Number of HSP's successfully gapped: 260
Length of query: 263
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 171
Effective length of database: 4,133,061
Effective search space: 706753431
Effective search space used: 706753431
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: 56 (25.5 bits)