RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6462
(234 letters)
>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 = 31.1 bits (69), Expect = 0.16
Identities = 7/25 (28%), Positives = 14/25 (56%), Gaps = 3/25 (12%)
Query: 183 EAVRIRK-EN--QIYSADEKRALAM 204
E ++K + ++Y+ D ALA+
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAI 42
Score = 27.2 bits (59), Expect = 3.2
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 11/30 (36%)
Query: 91 DKSAVKSSDSS---HSSDSDNSDRDTVGPA 117
+K A+K +S ++ DS PA
Sbjct: 18 EKQALKKLQASLKLYADDS--------APA 39
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 31.0 bits (70), Expect = 0.33
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 36 KASPTSGDESSKKSKKKKHKKDKKKKSKKSKKRKKK 71
K + + K+ + K K K K K ++ K
Sbjct: 344 KVTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRGK 379
Score = 28.7 bits (64), Expect = 1.7
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 39 PTSGDESSKKSKKKKHKKDKKKKSKKSKKRKKKK 72
+G SS K K+ + K KKK+K K K+
Sbjct: 344 KVTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKR 377
Score = 27.2 bits (60), Expect = 5.9
Identities = 11/35 (31%), Positives = 15/35 (42%)
Query: 32 PSGRKASPTSGDESSKKSKKKKHKKDKKKKSKKSK 66
+G +S + K S KKK K K K+ K
Sbjct: 345 VTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRGK 379
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 29.4 bits (66), Expect = 1.1
Identities = 19/124 (15%), Positives = 43/124 (34%), Gaps = 4/124 (3%)
Query: 44 ESSKKSKKKKHKKDKKKKSKKSKKRKKKKYSSSSSSDSSSSSEDEWVDKSAVKSSDSSHS 103
++ K +K + KK +K R + SS + + + + + ++ +
Sbjct: 629 DTWGKQGGGTQQKAEGKKRPSTKGRGPDEVRGEGSSSPAKAHAPKAQPLTPEQDAEFTRL 688
Query: 104 SDSDNSDRDTVGPAPKQHVTLTQKDYGKALLPGEGAAMAAYVA-EGKRIPRRGEIGLTSD 162
S+ D A + G A A +A++ E R GE+ + +
Sbjct: 689 LGLGASEGDARTIARDPALLAF---VGGAAPGDTFAQVASWTVNELVAGLRAGEVKVRAA 745
Query: 163 EIER 166
++
Sbjct: 746 DLAP 749
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 1.5
Identities = 12/51 (23%), Positives = 27/51 (52%)
Query: 183 EAVRIRKENQIYSADEKRALAMFSKEERQKRENRILTQFKEMVSSKLAKNK 233
E++R +E Q E A + ++E +++ + L ++ + S ++ KNK
Sbjct: 85 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 135
Score = 26.3 bits (57), Expect = 7.7
Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 13/51 (25%)
Query: 43 DESSKKSK---KKKHKKD----------KKKKSKKSKKRKKKKYSSSSSSD 80
D +SK + ++K KKD + +K+K + + K + +D
Sbjct: 102 DAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDAD 152
>3g17_A Similar to 2-dehydropantoate 2-reductase; structural genomics,
putative 2-dehydropantoate 2-reductase, protein
structure initiative; 2.30A {Staphylococcus aureus
subsp}
Length = 294
Score = 28.8 bits (65), Expect = 1.5
Identities = 5/72 (6%), Positives = 18/72 (25%), Gaps = 10/72 (13%)
Query: 123 TLTQKDYGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIERYEAVGYVMSGS----- 177
L ++ P + +G R+ + + + ++ +
Sbjct: 181 ALGRQTVAIMHNPEIRILCRQLLLDGCRVAQAEGLNFSEQTVDTIMTIYQGYPDEMGTSM 240
Query: 178 -----RHRRMEA 184
+ +E
Sbjct: 241 YYDIVHQQPLEV 252
>1dzl_A Late major capsid protein L1; icosahedral; 3.50A {Human
papillomavirus type 16} SCOP: b.121.6.1
Length = 505
Score = 27.9 bits (62), Expect = 3.1
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 4/60 (6%)
Query: 14 ELDYQEFLMLDNELFSVLPSGRKASPTSG-DESSKKSKKKKHKKDKKKKSKKSKKRKKKK 72
E++ +E D + F P GRK G K + K+ + + KRKK+K
Sbjct: 448 EVNLKEKFSADLDQF---PLGRKFLLQLGLKAKPKFTLGKRKATPTTSSTSTTAKRKKRK 504
>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 = 28.0 bits (62), Expect = 3.2
Identities = 10/48 (20%), Positives = 20/48 (41%)
Query: 33 SGRKASPTSGDESSKKSKKKKHKKDKKKKSKKSKKRKKKKYSSSSSSD 80
R+ ++ ++ + + D + K KK+KKKK +D
Sbjct: 67 VARQLERSALEDKERDEDDEDGDGDGDGATGKKKKKKKKKRGPKVQTD 114
>3q5y_A TCR N15 beta; IG, T cell receptor, antigen peptide/MHC, membrane,
immune S; HET: EPE; 1.90A {Mus musculus} PDB: 1nfd_B*
3q5t_A
Length = 240
Score = 27.6 bits (61), Expect = 3.4
Identities = 12/77 (15%), Positives = 21/77 (27%), Gaps = 4/77 (5%)
Query: 56 KDKKKKSKKSKKRKKKKYSSSSSSDSSSSSEDEWVDKSAVKSSDSSHSSDSDNSDRDTVG 115
++ K YS SS S W + S+
Sbjct: 166 HSGVSTDPQAYKESNYSYSLSS---RLRVSATFWHNPRNHFRCQVQFHGLSEEDKWPEGS 222
Query: 116 PAPKQHVTLTQKDYGKA 132
P P ++ + +G+A
Sbjct: 223 PKPVT-QNISAEAWGRA 238
>1q7e_A Hypothetical protein YFDW; structural genomics, intertwined dimer,
PSI, protein structu initiative; HET: MSE; 1.60A
{Escherichia coli} SCOP: c.123.1.1 PDB: 1pqy_A* 1q6y_A*
1pt7_A 1pt5_A 1pt8_A*
Length = 428
Score = 27.6 bits (62), Expect = 4.3
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 8/68 (11%)
Query: 122 VTLTQKDYGKALLPGEGAAMAAYVAEGKRIPRRGE--------IGLTSDEIERYEAVGYV 173
V + Q GK L G +A+ + K P GE +G + DEI + +
Sbjct: 359 VEVEQPLRGKYLTVGCPMKFSAFTPDIKAAPLLGEHTAAVLQELGYSDDEIAAMKQNHAI 418
Query: 174 MSGSRHRR 181
GS H
Sbjct: 419 EGGSHHHH 426
>2zcu_A Uncharacterized oxidoreductase YTFG; alpha-beta sandwich; 1.80A
{Escherichia coli} PDB: 2zcv_A*
Length = 286
Score = 27.2 bits (61), Expect = 4.6
Identities = 9/47 (19%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 121 HVTLTQKDYGKALLP-GEGAAMAAYVAEGKRIPRRGEIGLTSDEIER 166
+ L++ D+ AL G +A +A+ +G + S + +
Sbjct: 219 YQNLSEADFAAALKSVGLPDGLADMLADSDVGASKGGLFDDSKTLSK 265
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 27.1 bits (59), Expect = 5.6
Identities = 9/52 (17%), Positives = 19/52 (36%)
Query: 49 SKKKKHKKDKKKKSKKSKKRKKKKYSSSSSSDSSSSSEDEWVDKSAVKSSDS 100
+ + K + K KK K + +KKK + ++ + K +
Sbjct: 818 TARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYK 869
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 27.2 bits (59), Expect = 5.8
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 39 PTSGDESSKKSKKKKHKKDKKKKSKKSKKRKKKKYSSSSSSDSSSSSEDEWVDKSAV 95
SG S ++S K+ K K +K+ +K S + + S +W+D S+V
Sbjct: 231 AISGLSSFQRSLWIAAKQGKHKVQPPTKQGQK---SQRKARRGPAISSWDWLDISSV 284
>1lw3_A Myotubularin-related protein 2; protein-phosphate complex,
hydrolase; 2.30A {Homo sapiens} SCOP: b.55.1.8 c.45.1.3
PDB: 1m7r_A
Length = 657
Score = 27.2 bits (59), Expect = 6.4
Identities = 15/62 (24%), Positives = 23/62 (37%)
Query: 76 SSSSDSSSSSEDEWVDKSAVKSSDSSHSSDSDNSDRDTVGPAPKQHVTLTQKDYGKALLP 135
S S SS+S+ +S S S S ++D + + + LLP
Sbjct: 24 SVDSLSSASTSHSENSVHTKSASVVSSDSISTSADNFSPDLRVLRESNKLAEMEEPPLLP 83
Query: 136 GE 137
GE
Sbjct: 84 GE 85
>3e48_A Putative nucleoside-diphosphate-sugar epimerase; alpha-beta
protein., structural genomics, PSI-2, protein STR
initiative; 1.60A {Staphylococcus aureus subsp}
Length = 289
Score = 26.9 bits (60), Expect = 6.5
Identities = 6/46 (13%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 121 HVTLTQKDYGKALLPGEGAAMAAYVAEGKRIPRRGEIGLTSDEIER 166
+ ++ + + + E A +A RG + S++ ++
Sbjct: 221 YEPVSLETFAEMY--DEPKGFGALLASMYHAGARGLLDQESNDFKQ 264
>2jl1_A Triphenylmethane reductase; oxidoreductase, bioremediation; HET:
NAP GOL; 1.96A {Citrobacter SP} PDB: 2vrb_A* 2vrc_A
2vrc_D
Length = 287
Score = 26.9 bits (60), Expect = 6.5
Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 121 HVTLTQKDYGKALLP-GEGAAMAAYVAEGKRIPRRGEIGLTSDEIER 166
H ++ ++ L+ G A +GE TSD++++
Sbjct: 223 HQPVSFEEEKNFLVNAGVPEPFTEITAAIYDAISKGEASKTSDDLQK 269
>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 = 26.5 bits (58), Expect = 6.7
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 51 KKKHKKDKKKKSKKSKKRKKKKYSSSSSSDSS 82
KK+ KK+K KKSK ++ ++K S S S
Sbjct: 114 KKRDKKNKSKKSKPAQGGEQKLISEEDDSAGS 145
>1vlo_A Aminomethyltransferase; NP417381, tetrahydrofolat dependent) of
glycine cleavage system, structural genomics, protein
structure initiative; HET: MSE; 1.70A {Escherichia coli
K12} SCOP: b.44.2.1 d.250.1.1 PDB: 3a8j_A* 3a8i_A*
3a8k_A*
Length = 381
Score = 26.3 bits (59), Expect = 8.2
Identities = 6/34 (17%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 145 VAEGKRIPRRG-EIGLTSDEIERYEAVGYVMSGS 177
V K + R + + + + G + SG+
Sbjct: 297 VMTEKGVLRNELPV--RFTDAQGNQHEGIITSGT 328
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
0.304 0.120 0.316
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: 3,197,927
Number of extensions: 181660
Number of successful extensions: 934
Number of sequences better than 10.0: 1
Number of HSP's gapped: 800
Number of HSP's successfully gapped: 142
Length of query: 234
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 143
Effective length of database: 4,160,982
Effective search space: 595020426
Effective search space used: 595020426
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 56 (25.5 bits)