RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4232
(130 letters)
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 110 bits (275), Expect = 4e-32
Identities = 83/128 (64%), Positives = 103/128 (80%)
Query: 1 MKLGLCAYSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWTVLYRRKQK 60
MK+ LC++SGYKIYPGHG+ + DGK F F+N+KCES+F +RNPR++ WTVLYRRK K
Sbjct: 1 MKVELCSFSGYKIYPGHGRRYARTDGKVFQFLNAKCESAFLSKRNPRQINWTVLYRRKHK 60
Query: 61 KGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIRKAQREQAIKAAKEQKRAQK 120
KGQ EE +KRTRR KFQRAI GAS+ DI+AKRN KPE+RKAQREQAI+AAKE K+A++
Sbjct: 61 KGQSEEIQKKRTRRAVKFQRAITGASLADIMAKRNQKPEVRKAQREQAIRAAKEAKKAKQ 120
Query: 121 EAKKPPPP 128
+KK
Sbjct: 121 ASKKTAMA 128
>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_T 4a1c_T 4a1e_T
Length = 158
Score = 103 bits (258), Expect = 2e-29
Identities = 39/130 (30%), Positives = 72/130 (55%)
Query: 1 MKLGLCAYSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWTVLYRRKQK 60
++ G C++ Y+IYPG G+ + DG+ F F+ K + + +K+TWT+ RR K
Sbjct: 3 VRTGTCSFCEYRIYPGRGQRFIAKDGRGFFFLTKKAKCLSLRKVKAQKITWTIARRRLWK 62
Query: 61 KGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIRKAQREQAIKAAKEQKRAQK 120
K + + +K+ +R RAIVG S+ +I ++N+ +KA+ E+A++ K++K
Sbjct: 63 KVKATDIAQKKKKRNVTVARAIVGISLEEINRRKNLDASHKKAEAEKAVRELKQKKANDI 122
Query: 121 EAKKPPPPTK 130
E K+ +
Sbjct: 123 EKKRADRKLQ 132
>3izc_Z 60S ribosomal protein RPL24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_Z
3o58_V 3o5h_V 3u5e_W 3u5i_W 1s1i_S 2x7n_D
Length = 155
Score = 102 bits (256), Expect = 3e-29
Identities = 65/124 (52%), Positives = 90/124 (72%)
Query: 1 MKLGLCAYSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWTVLYRRKQK 60
MK+ + ++SG KIYPG G V+ D K F F NSK S FK R+NPR++ WTVL+R+ K
Sbjct: 1 MKVEIDSFSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWTVLFRKHHK 60
Query: 61 KGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIRKAQREQAIKAAKEQKRAQK 120
KG EE +KR+R+T K QR I GAS++ I +R++KPE+RKA RE+ +KA KE+K+A+K
Sbjct: 61 KGITEEVAKKRSRKTVKAQRPITGASLDLIKERRSLKPEVRKANREEKLKANKEKKKAEK 120
Query: 121 EAKK 124
A+K
Sbjct: 121 AARK 124
>3iz5_Z 60S ribosomal protein L24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Z
Length = 162
Score = 99.7 bits (248), Expect = 5e-28
Identities = 56/125 (44%), Positives = 78/125 (62%), Gaps = 1/125 (0%)
Query: 1 MKLGLCAYSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWTVLYRRKQK 60
+K LC +SG KIYPG G ++ D + F F NSKC+ F R P K+TWT +YR++ K
Sbjct: 3 LKTELCRFSGQKIYPGKGIRFIRADSQVFLFANSKCKRYFHNRLKPAKLTWTAMYRKQHK 62
Query: 61 KGQEEEATRKRTRRTH-KFQRAIVGASINDILAKRNVKPEIRKAQREQAIKAAKEQKRAQ 119
K EA +KR R T + R+IVGA++ I KR+ KPE+R A RE A++ KE+ +
Sbjct: 63 KDIHAEAVKKRRRTTKKPYSRSIVGATLEVIQKKRSEKPEVRDAAREAALREIKERIKKT 122
Query: 120 KEAKK 124
K+ KK
Sbjct: 123 KDEKK 127
>1vq8_U 50S ribosomal protein L24E; ribosome 50S, protein-protein
complex, RNA-RNA complex, PROT complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: g.39.1.6 PDB:
1giy_R 1jj2_T 1k73_V* 1k8a_V* 1k9m_V* 1kc8_V* 1kd1_V*
1kqs_T* 1m1k_V* 1m90_V* 1ml5_r* 1n8r_V* 1nji_V* 1q7y_V*
1q81_V* 1q82_V* 1q86_V* 1qvf_T 1qvg_T 1s72_U* ...
Length = 66
Score = 91.0 bits (226), Expect = 1e-25
Identities = 21/64 (32%), Positives = 32/64 (50%)
Query: 2 KLGLCAYSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWTVLYRRKQKK 61
+ C Y G I PG G V DG + F +SKCE++ + R R + WT R + +
Sbjct: 2 RTRECDYCGTDIEPGTGTMFVHKDGATTHFCSSKCENNADLGREARNLEWTDTARGEAGE 61
Query: 62 GQEE 65
++E
Sbjct: 62 AEDE 65
>3jyw_S 60S ribosomal protein L24(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus}
Length = 45
Score = 77.8 bits (192), Expect = 9e-21
Identities = 25/45 (55%), Positives = 30/45 (66%)
Query: 8 YSGYKIYPGHGKTLVKVDGKSFTFINSKCESSFKMRRNPRKVTWT 52
+SG KIYPG G V+ D K F F NSK S FK R+NPR++ WT
Sbjct: 1 FSGAKIYPGRGTLFVRGDSKIFRFQNSKSASLFKQRKNPRRIAWT 45
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.14
Identities = 13/85 (15%), Positives = 32/85 (37%), Gaps = 15/85 (17%)
Query: 41 KMRRNPRKVT-WTVLYRRKQKKGQEE--EATRKRTRRTHKFQRAIVGASINDILAKRNVK 97
++ + P + W R +Q+K +E A++ + R + + +++ +
Sbjct: 79 RLTQEPESIRKW----REEQRKRLQELDAASKVMEQEW----REKAKKDLEEWNQRQSEQ 130
Query: 98 PEIRKAQREQAIKAAKEQKRAQKEA 122
E K + A + Q +A
Sbjct: 131 VEKNKINN----RIADKAFYQQPDA 151
Score = 30.1 bits (67), Expect = 0.16
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 15/63 (23%)
Query: 63 QEEEATRK-RTRRTHKFQRAIVGASINDILAKRNVKPEIRKAQ-REQAIKAAKEQKRAQK 120
QE E+ RK R + L + + ++ + + RE+A K +E + Q
Sbjct: 82 QEPESIRKWREEQ-------------RKRLQELDAASKVMEQEWREKAKKDLEEWNQRQS 128
Query: 121 EAK 123
E
Sbjct: 129 EQV 131
Score = 25.1 bits (54), Expect = 6.5
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 8/35 (22%)
Query: 98 PE-IRKAQREQAI------KAAKEQKRAQKE-AKK 124
PE IRK + EQ A+K ++ +E AKK
Sbjct: 84 PESIRKWREEQRKRLQELDAASKVMEQEWREKAKK 118
>2xlk_A CSY4 endoribonuclease; hydrolase-RNA complex, endoribonuclease,
crispr; 1.80A {Pseudomonas aeruginosa} PDB: 2xlj_A
2xli_A
Length = 191
Score = 29.5 bits (66), Expect = 0.23
Identities = 13/56 (23%), Positives = 18/56 (32%), Gaps = 2/56 (3%)
Query: 46 PRKVTWTVLYRRKQKKGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIR 101
P + R Q K E R+ RR H I D +A+ P +
Sbjct: 96 PHPTPY-RQVSRVQAKSNPERLRRRLMRR-HDLSEEEARKRIPDTVARTLDLPFVT 149
>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 = 29.2 bits (65), Expect = 0.38
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 7/73 (9%)
Query: 57 RKQKKGQEEEATRKRTRRTHKFQRAIV-GASINDILAKRNVKPEIRKAQREQAIKAAKEQ 115
K GQ ++ F+ + G I+ + AK + + + ++ IK
Sbjct: 73 EPSKVGQFDQVLNLCLTE---FENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT- 128
Query: 116 KRAQKEAKKPPPP 128
A+ AK+P
Sbjct: 129 --ARIMAKRPFDK 139
Score = 28.9 bits (64), Expect = 0.51
Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 11/61 (18%)
Query: 59 QKKG------QEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIR---KAQREQAI 109
Q++G + +A + R + G SI DI+ N + ++ + I
Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIV--INNPVNLTIHFGGEKGKRI 1684
Query: 110 K 110
+
Sbjct: 1685 R 1685
>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 = 29.1 bits (64), Expect = 0.42
Identities = 18/93 (19%), Positives = 35/93 (37%), Gaps = 26/93 (27%)
Query: 47 RKVTWTVLYRRKQKKGQEE------------------EATRKRTRRTHKF--QRAIVGAS 86
++ WT+L KQ++ ++ R+ + T + QR + +
Sbjct: 65 LRLFWTLL--SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL-YN 121
Query: 87 INDILAKRNVKPEIRKAQREQAIKAAKEQKRAQ 119
N + AK NV R + +A E + A+
Sbjct: 122 DNQVFAKYNVS---RLQPYLKLRQALLELRPAK 151
Score = 28.3 bits (62), Expect = 0.81
Identities = 17/116 (14%), Positives = 35/116 (30%), Gaps = 25/116 (21%)
Query: 7 AYSGYKIYPGHGKTLVKVDGKSFTFIN---SKCESSFKMRRNPRKVTWTVLY---RRKQK 60
Y+ K + +D ++ I E +M ++ R ++
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM------VFLDFRFLEQ 505
Query: 61 KGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKPEIRK--AQREQAIKAAKE 114
K R A G+ +N + + KP I + E+ + A +
Sbjct: 506 K----------IRHDSTAWNA-SGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.9 bits (65), Expect = 0.55
Identities = 14/90 (15%), Positives = 34/90 (37%), Gaps = 6/90 (6%)
Query: 39 SFKMRRNPRKVTWTVLYRRKQKKGQEEEATRKRTRRTHKFQRAIVGASINDILAKRNVKP 98
+ +R+ + + + + +G + R HK I+ + LA+ +
Sbjct: 828 MYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHK--SIIIQKHVRGWLARVHYHR 885
Query: 99 EIRKAQREQA----IKAAKEQKRAQKEAKK 124
++ Q + A +E K+ + EA+
Sbjct: 886 TLKAIVYLQCCYRRMMAKRELKKLKIEARS 915
>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer, ligase; HET: FYA; 2.50A {Thermus
thermophilus} SCOP: d.104.1.1 PDB: 1b70_A* 1eiy_A
1jjc_A* 1pys_A 2iy5_A* 3hfz_A* 3teh_A* 2aly_A* 2akw_A*
2amc_A*
Length = 350
Score = 28.0 bits (63), Expect = 0.93
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 8/46 (17%)
Query: 79 QRAIVGASINDILAKRNVKPEIRKA--QREQAIKAAKEQKRAQKEA 122
+R G +N +K + A RE+A++ A ++ ++E
Sbjct: 46 ERRKRGQELNA------IKAALEAALEAREKALEEAALKEALERER 85
>1k32_A Tricorn protease; protein degradation, substrate gating, serine
protease, beta propeller, proteasome, hydrolase; 2.00A
{Thermoplasma acidophilum} SCOP: b.36.1.3 b.68.7.1
b.69.9.1 c.14.1.2 PDB: 1n6e_A 1n6d_A 1n6f_A*
Length = 1045
Score = 27.1 bits (59), Expect = 2.0
Identities = 8/25 (32%), Positives = 10/25 (40%)
Query: 103 AQREQAIKAAKEQKRAQKEAKKPPP 127
Q + AI A E+ R E P
Sbjct: 1020 PQIDYAIDALIEELRNWNEELPQRP 1044
>3pco_A Phenylalanyl-tRNA synthetase, alpha subunit; aminoacylation,
tRNA-binding, DNA-binding domain, four-helix
aminoacyl-tRNA synthetase, ATP-binding; HET: PHE AMP;
3.02A {Escherichia coli}
Length = 327
Score = 27.1 bits (61), Expect = 2.0
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 8/46 (17%)
Query: 79 QRAIVGASINDILAKRNVKPEIRKA--QREQAIKAAKEQKRAQKEA 122
+R GA IN+ K ++++A R+ +++A R E
Sbjct: 52 ERPAAGAVINE------AKEQVQQALNARKAELESAALNARLAAET 91
>2hqx_A P100 CO-activator tudor domain; human P100 tudor domain,
proteolytic fragment, PSI, structural genomics; 1.42A
{Homo sapiens} SCOP: b.34.9.1 PDB: 2hqe_A 3omc_A*
3omg_A* 2o4x_A 2e6n_A 2o4x_B
Length = 246
Score = 26.2 bits (57), Expect = 3.2
Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 84 GASINDILAKRN-VKPEIRKAQREQAIKAAKEQKRAQKEAKK 124
+ L K V E+RK ++ Q K E AQ+ AK
Sbjct: 184 KGDVGLGLVKEGLVMVEVRKEKQFQ--KVITEYLNAQESAKS 223
>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing,
spliceosome, RNA-binding domain, SM fold, finger, RNA
recognition motif, 5' splice site; 5.49A {Homo sapiens}
PDB: 1uw2_A 2vrd_A
Length = 77
Score = 25.0 bits (54), Expect = 3.7
Identities = 13/37 (35%), Positives = 16/37 (43%)
Query: 93 KRNVKPEIRKAQREQAIKAAKEQKRAQKEAKKPPPPT 129
K NVK K EQA + A ++ K PP P
Sbjct: 31 KENVKDYYCKWMEEQAQSLIDKTTAAFQQGKIPPTPF 67
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance,
RNA processing, hydrolase, gene regulation; 2.10A
{Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB:
2hbk_A 2hbl_A* 2hbm_A*
Length = 410
Score = 25.9 bits (57), Expect = 4.1
Identities = 7/46 (15%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 85 ASINDILAKRNVKP-EIRKAQRE--QAIKAAKEQKRAQKEAKKPPP 127
+ +++ N +R+ + I+ A + E P P
Sbjct: 352 TDVIGVVSLTNGVTEHVRQNAKLLANLIRDALRNIKNTNEEATPIP 397
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin
enzyme, photoreactivating enzyme; HET: FAD; 1.80A
{Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB:
1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A*
Length = 484
Score = 26.0 bits (58), Expect = 4.9
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 102 KAQREQAIKAAKEQKRAQKEAKKPP 126
+++Q + K A E + P
Sbjct: 458 NLRQKQFKALYNQLKAAIAEPEAEP 482
>3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex,
biotin-dependent carboxylase, ligase; HET: BTI; 3.20A
{Ruegeria pomeroyi}
Length = 681
Score = 25.7 bits (57), Expect = 5.0
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 96 VKPEIRKAQREQAIKAAK 113
+ R+A EQA+ AK
Sbjct: 247 LDEATRRAMGEQAVALAK 264
>2a7w_A PRA-PH, phosphoribosyl-ATP pyrophosphatase; structural genomics,
PSI, protein structure initiative; 2.80A
{Chromobacterium violaceum} SCOP: a.204.1.4
Length = 116
Score = 25.0 bits (55), Expect = 5.6
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 51 WTVLYRRKQKKGQEEEATRKRTRRTH 76
L+RR+ G +E+A+RK T H
Sbjct: 86 VMELHRREGISGLDEKASRKPTALEH 111
>1h6z_A Pyruvate phosphate dikinase; transferase, tropical parasite,
trypanosome; 3.00A {Trypanosoma brucei} SCOP: c.1.12.2
c.8.1.1 d.142.1.5 PDB: 2x0s_A
Length = 913
Score = 25.5 bits (56), Expect = 6.6
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 10/45 (22%)
Query: 80 RAIVGASINDILAKRNVKPEI----------RKAQREQAIKAAKE 114
RAI+ A+I +V PEI RE+ +K A+
Sbjct: 708 RAIIEAAIAVSEEGSSVIPEIMVPLVGKKEELSLIREEVVKTAEA 752
>3va7_A KLLA0E08119P; carboxylase, ligase; HET: BTI; 2.60A {Kluyveromyces
lactis}
Length = 1236
Score = 25.4 bits (56), Expect = 7.4
Identities = 3/19 (15%), Positives = 6/19 (31%)
Query: 95 NVKPEIRKAQREQAIKAAK 113
N+ R R + +
Sbjct: 274 NLPEATRAKMRAASERLGS 292
>1vbg_A Pyruvate,orthophosphate dikinase; transferase, maize, riken
structural genomics/proteomics INI RSGI, structural
genomics; 2.30A {Zea mays} SCOP: c.1.12.2 c.8.1.1
d.142.1.5 PDB: 1vbh_A*
Length = 876
Score = 25.1 bits (55), Expect = 8.2
Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 10/45 (22%)
Query: 80 RAIVGASINDILAKRNVKPEI----------RKAQREQAIKAAKE 114
RAI A+I V PEI Q + A++
Sbjct: 688 RAIFEAAIAMTNQGVQVFPEIMVPLVGTPQELGHQVTLIRQVAEK 732
>3ll6_A Cyclin G-associated kinase; transferase, protein kinase,
serine/threonine kinase, cyclin clathrine, membrane
trafficking, structural genomics; 2.10A {Homo sapiens}
Length = 337
Score = 25.1 bits (55), Expect = 8.7
Identities = 8/43 (18%), Positives = 13/43 (30%)
Query: 86 SINDILAKRNVKPEIRKAQREQAIKAAKEQKRAQKEAKKPPPP 128
SI +++ + R + I EQ A P
Sbjct: 295 SIAEVVHQLQEIAAARNVNPKSPITELLEQNGGYGSATLSRGP 337
>2z0f_A Putative phosphoglucomutase; isomerase, magnesium, metal-binding,
structural genomics; 2.52A {Thermus thermophilus}
Length = 524
Score = 24.9 bits (55), Expect = 9.7
Identities = 4/11 (36%), Positives = 5/11 (45%)
Query: 8 YSGYKIYPGHG 18
G+K P G
Sbjct: 136 DGGFKYNPPTG 146
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.129 0.371
Gapped
Lambda K H
0.267 0.0421 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,961,688
Number of extensions: 104756
Number of successful extensions: 416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 56
Length of query: 130
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 47
Effective length of database: 4,384,350
Effective search space: 206064450
Effective search space used: 206064450
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: 52 (24.6 bits)