RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy654
(224 letters)
>2cqa_A RUVB-like 2; TIP48, TIP49B, reptin 52, ECP-51, TAP54-beta,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
b.40.4.14
Length = 95
Score = 131 bits (332), Expect = 5e-40
Identities = 70/87 (80%), Positives = 80/87 (91%)
Query: 14 EETEMIEGEVVEIQIERPATGLGSKVGKLTMKTTEMETSYDLGAKMIEAIGKEKVQAGDV 73
EETE+IEGEVVEIQI+RPATG GSKVGKLT+KTTEMET YDLG KMIE++ K+KVQAGDV
Sbjct: 9 EETEIIEGEVVEIQIDRPATGTGSKVGKLTLKTTEMETIYDLGTKMIESLTKDKVQAGDV 68
Query: 74 ITIDKATGKITRLGRSFTRARDYDATG 100
ITIDKATGKI++LGRSFTRAR ++G
Sbjct: 69 ITIDKATGKISKLGRSFTRARSGPSSG 95
Score = 59.0 bits (143), Expect = 6e-12
Identities = 26/33 (78%), Positives = 30/33 (90%)
Query: 159 VQAGDVITIDKATGKITRLGRSFTRARDYDATG 191
VQAGDVITIDKATGKI++LGRSFTRAR ++G
Sbjct: 63 VQAGDVITIDKATGKISKLGRSFTRARSGPSSG 95
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 89.7 bits (222), Expect = 5e-21
Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 14 EETEMIEGEVVEIQI---ERPATGLGSKV--GKLTMKTTEMETSYDLGAKMIEAIGKEKV 68
E E+ EGEV E+ E P G G + + +KT + L + E++ KE+V
Sbjct: 126 ETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERV 185
Query: 69 QAGDVITIDKATGKITRLGRSFTRARDYDATG 100
+AGDVI I+ +G + R GR T A ++D
Sbjct: 186 EAGDVIYIEANSGAVKRQGRCDTYATEFDLEA 217
Score = 50.0 bits (119), Expect = 2e-07
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 159 VQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRQC 197
V+AGDVI I+ +G + R GR T A ++D +
Sbjct: 185 VEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPL 223
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 46.1 bits (109), Expect = 3e-06
Identities = 22/102 (21%), Positives = 34/102 (33%), Gaps = 15/102 (14%)
Query: 57 AKMIEAIGKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTRNTLPSRSRHVSS 116
A ++ + +E AG + I G G++ A G T T + S S
Sbjct: 56 AGVVLEMIREGKIAGRAVLIAGQPGT----GKTAIAMGMAQALGPDTPFTAIAGSEIFSL 111
Query: 117 WGVQKDVVQSISNNIICPVVPRPESSRSEDSGS--TVTLHEI 156
+S R +G+ TV+LHEI
Sbjct: 112 ---------EMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEI 144
Score = 33.8 bits (77), Expect = 0.039
Identities = 11/54 (20%), Positives = 15/54 (27%), Gaps = 6/54 (11%)
Query: 158 DVQAGDVITIDKATGKITRLGRSFTRARDYDATGAQTR--QCNLNEIVPTTHDK 209
AG + I G G++ A G T +EI K
Sbjct: 66 GKIAGRAVLIAGQPGT----GKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSK 115
>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 = 44.7 bits (105), Expect = 1e-05
Identities = 41/227 (18%), Positives = 70/227 (30%), Gaps = 72/227 (31%)
Query: 1 MSQMSTHSDTNHIEETEMIEGEVVE----IQIERPATGLGSKVGKLT------MKTTEME 50
S M + + +TE I E+ E L T + E
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL-----SATQFTQPALTLMEKA 1742
Query: 51 TSYDLGAKMIEAIGKEKVQAG-------------DVITIDKATGKITRL-GRSFTRARDY 96
DL +K + I + AG DV++I+ ++ G + A
Sbjct: 1743 AFEDLKSKGL--IPADATFAGHSLGEYAALASLADVMSIESLV-EVVFYRGMTMQVAVPR 1799
Query: 97 DATGAQTRNTL---PSRSRHVSSWGVQKDVVQSISNNIICPVVPRPESSRSEDSGSTVTL 153
D G + P R V++ ++ +Q + + + +G V
Sbjct: 1800 DELGRSNYGMIAINPGR---VAA-SFSQEALQYVVERV------------GKRTGWLV-- 1841
Query: 154 HEIV-----DVQ---AGDVITIDKATG----------KITRLGRSFT 182
EIV + Q AGD+ +D T I L +S +
Sbjct: 1842 -EIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLS 1887
Score = 29.2 bits (65), Expect = 1.4
Identities = 19/123 (15%), Positives = 37/123 (30%), Gaps = 29/123 (23%)
Query: 48 EMETSYDLGAKMIEAIGKEKVQAGDVITIDKATGKITRLGRSFTRARDYDATGA------ 101
E+ Y ++ + I + ++ L R+ A G
Sbjct: 172 ELRDLYQTYHVLVGDL------------IKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 102 QTRNTLPSRSRHVS---SW---GVQKDVVQSISNNIICPVV-PRPESSRSEDSGSTVTLH 154
+ + P + +S S GV +Q + ++ P RS G+T
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGV----IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 155 EIV 157
+V
Sbjct: 276 GLV 278
>1v7l_A 3-isopropylmalate dehydratase small subunit; beta barrel, lyase;
1.98A {Pyrococcus horikoshii} SCOP: c.8.2.1
Length = 163
Score = 29.9 bits (68), Expect = 0.32
Identities = 6/27 (22%), Positives = 15/27 (55%)
Query: 66 EKVQAGDVITIDKATGKITRLGRSFTR 92
E ++ GD++T++ TG++ +
Sbjct: 108 EGLKDGDLVTVNWETGEVRKGDEILMF 134
Score = 27.6 bits (62), Expect = 2.2
Identities = 5/26 (19%), Positives = 14/26 (53%)
Query: 158 DVQAGDVITIDKATGKITRLGRSFTR 183
++ GD++T++ TG++ +
Sbjct: 109 GLKDGDLVTVNWETGEVRKGDEILMF 134
>1kbl_A PPDK, pyruvate phosphate dikinase; transferase, phosphotransferase;
1.94A {Clostridium symbiosum} SCOP: c.1.12.2 c.8.1.1
d.142.1.5 PDB: 1kc7_A* 1dik_A 1ggo_A 1jde_A 2dik_A
2r82_A 2fm4_A
Length = 873
Score = 28.2 bits (63), Expect = 2.6
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 127 ISNNIICPVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITIDKATGKI 174
++ + V + + T L GD I++D +TGKI
Sbjct: 458 VARGMGTCCVSGCGEIKINEEAKTFELGGHT-FAEGDYISLDGSTGKI 504
Score = 27.0 bits (60), Expect = 7.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 63 IGKEKVQAGDVITIDKATGKI 83
+G GD I++D +TGKI
Sbjct: 484 LGGHTFAEGDYISLDGSTGKI 504
>2pkp_A Homoaconitase small subunit; beta barrel, amino-acid biosynthesis,
leucine biosynthesis, structural genomics, NPPSFA; 2.10A
{Methanocaldococcus jannaschii}
Length = 170
Score = 27.3 bits (61), Expect = 2.8
Identities = 6/26 (23%), Positives = 15/26 (57%)
Query: 66 EKVQAGDVITIDKATGKITRLGRSFT 91
++++ GD++ ID +I ++ T
Sbjct: 108 DEIKDGDIVEIDLDKEEIVITNKNKT 133
>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 = 28.2 bits (63), Expect = 3.0
Identities = 9/41 (21%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 134 PVVPRPESSRSEDSGSTVTLHEIVDVQAGDVITIDKATGKI 174
V R D+ VT+ V ++ G+ ++++ +TG++
Sbjct: 469 CCVSGCSGIRVNDAEKLVTIGGHV-LREGEWLSLNGSTGEV 508
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 27.8 bits (62), Expect = 3.1
Identities = 13/79 (16%), Positives = 23/79 (29%), Gaps = 7/79 (8%)
Query: 17 EMIEGEVVEIQIERPATG------LGSKVGKLTMKTTEMETSYDLGAKMIEAIGK-EKVQ 69
E++ G L + + E +Y L M + E V+
Sbjct: 240 EILAELPEPYLFRAEEEGVVELKELEEGAFLVLRREDEPVATYFLPVGMTPLVVHGEIVE 299
Query: 70 AGDVITIDKATGKITRLGR 88
G + K ++ R R
Sbjct: 300 KGQPLAEAKGLLRMPRQVR 318
>1l5j_A Aconitate hydratase 2; molecular recognition, RNA binding, citric
acid cycle, heat- like domain, lyase; HET: TRA; 2.40A
{Escherichia coli} SCOP: a.118.15.1 c.8.2.1 c.83.1.1
Length = 865
Score = 27.5 bits (61), Expect = 4.1
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 145 EDSGSTVTLHEIVDVQAGDVITIDKATGKITR 176
ED+G+ ++ ++ GDVI + G++
Sbjct: 287 EDAGALPIEVDVSNLNMGDVIDVYPYKGEVRN 318
>3afo_A NADH kinase POS5; alpha/beta+BETA sandwich, ATP-binding,
mitochondrion NADP, nucleotide-binding, transferase,
transit peptide; HET: NAI; 2.00A {Saccharomyces
cerevisiae}
Length = 388
Score = 27.4 bits (61), Expect = 4.5
Identities = 9/56 (16%), Positives = 20/56 (35%), Gaps = 2/56 (3%)
Query: 128 SNNIICPVVPRPESSRSEDSGSTVTL--HEIVDVQAGDVITIDKATGKITRLGRSF 181
++ I + + + +S +++ D+ GD I + G I G
Sbjct: 278 HSSHIRIKIGSKLNQKPVNSVVKLSVDGIPQQDLDVGDEIYVINEVGTIYIDGTQL 333
>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2
function project, S2F, unknown function; HET: ADP;
1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB:
1fl9_A
Length = 158
Score = 26.8 bits (60), Expect = 4.7
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 4/52 (7%)
Query: 48 EMETSYDLGAKMIEAIGKEKVQAGDVITI--DKATGKITRLGRSFTRARDYD 97
E G K E + K + ++ + D GK T L R + +
Sbjct: 11 EFSML-RFGKKFAEILLKLHTEKAIMVYLNGDLGAGK-TTLTRGMLQGIGHQ 60
>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 = 26.6 bits (59), Expect = 7.2
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 63 IGKEKVQAGDVITIDKATGKI 83
+ + GD ITID + G I
Sbjct: 511 LNGSVFREGDYITIDGSKGLI 531
>1mi8_A DNAB intein; all beta-strands, hydrolase; 2.00A {Synechocystis SP}
SCOP: b.86.1.2
Length = 158
Score = 26.0 bits (56), Expect = 7.4
Identities = 6/32 (18%), Positives = 18/32 (56%)
Query: 145 EDSGSTVTLHEIVDVQAGDVITIDKATGKITR 176
+G V++ +++D + ++ I++ T K+
Sbjct: 13 ASTGKRVSIKDLLDEKDFEIWAINEQTMKLES 44
>2gp4_A 6-phosphogluconate dehydratase; N-terminal domain largely
alpha-helical, C-terminal domain M beta-sheet
(trefoil-like); 2.49A {Shewanella oneidensis} SCOP:
c.8.2.2 d.334.1.1
Length = 628
Score = 26.4 bits (59), Expect = 9.5
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 67 KVQAGDVITIDKATGKIT 84
KVQ GD+I +D TG+++
Sbjct: 557 KVQDGDLIRVDALTGELS 574
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
0.313 0.128 0.353
Gapped
Lambda K H
0.267 0.0502 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,207,726
Number of extensions: 187775
Number of successful extensions: 390
Number of sequences better than 10.0: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 42
Length of query: 224
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,188,903
Effective search space: 561313002
Effective search space used: 561313002
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.5 bits)