RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1922
(159 letters)
>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 = 33.1 bits (75), Expect = 0.037
Identities = 19/89 (21%), Positives = 32/89 (35%), Gaps = 20/89 (22%)
Query: 11 GVDIAIVKKSGKVSALEDEIQTRIALDAADGVDIA--------IVKKSGKVSALEDEIQT 62
++ V S AL+ + R+ V+I V +G + AL D +
Sbjct: 1811 AINPGRVAASFSQEALQ-YVVERVGKRTGWLVEIVNYNVENQQYVA-AGDLRAL-DTVTN 1867
Query: 63 RLKELNV--------EES-SATHVLGRLF 82
L + + ++S S V G LF
Sbjct: 1868 VLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
Score = 32.7 bits (74), Expect = 0.045
Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 18/90 (20%)
Query: 7 DAADGV--DIAIVKKSGKVSALEDEIQTRIAL-DAADGVDIAIVKKSGKVSALEDEIQTR 63
A+D + D+ S + +I + D DG D+ ++ S + D I R
Sbjct: 434 PASDLINKDLVKNNVSFNAKDI------QIPVYDTFDGSDLRVLSGS-ISERIVDCI-IR 485
Query: 64 LK---ELNVEESSATHVLGRLF-PFDDRGL 89
L E + ATH+L F P GL
Sbjct: 486 LPVKWETTTQ-FKATHIL--DFGPGGASGL 512
Score = 29.2 bits (65), Expect = 0.64
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 8/50 (16%)
Query: 99 WA-FYNTADKAAVVL---GKRFHLI--SSNVTNTMTRGLVENSQHVVLPS 142
W F+ + KA VL G R + ++++ ++ +EN++ V PS
Sbjct: 289 WESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV--PS 336
>2bpl_A Glucosamine--fructose-6-phosphate aminotransferase [isomerizing];
amidotransferase, ammonia channeling, glucosamine 6-
phosphate synthase; HET: F6R; 2.05A {Escherichia coli}
SCOP: c.80.1.1 d.153.1.1 PDB: 1jxa_A* 2j6h_A* 2vf4_X
2vf5_X* 3ooj_A*
Length = 608
Score = 32.8 bits (76), Expect = 0.041
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 2 CGIALDAADGVDIAIVKKSGKVSALEDEIQTR 33
G+A+ A+G + +++ GKV L +
Sbjct: 31 AGLAVVDAEG-HMTRLRRLGKVQMLAQAAEEH 61
Score = 28.6 bits (65), Expect = 0.84
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 34 IALDAADGVDIAIVKKSGKVSALEDEIQTR 63
+A+ A+G + +++ GKV L +
Sbjct: 33 LAVVDAEG-HMTRLRRLGKVQMLAQAAEEH 61
>1xff_A D-fructose-6-, glucosamine--fructose-6-phosphate aminotransferase
[isomerizing]; complex (transferase/inhibitor),
glutamine amidotransferase; HET: GLU; 1.80A
{Escherichia coli} SCOP: d.153.1.1 PDB: 1xfg_A*
Length = 240
Score = 31.7 bits (73), Expect = 0.060
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 2 CGIALDAADGVDIAIVKKSGKVSALEDEIQTR 33
G+A+ A+G + +++ GKV L +
Sbjct: 31 AGLAVVDAEG-HMTRLRRLGKVQMLAQAAEEH 61
Score = 27.8 bits (63), Expect = 1.5
Identities = 7/30 (23%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 34 IALDAADGVDIAIVKKSGKVSALEDEIQTR 63
+A+ A+G + +++ GKV L +
Sbjct: 33 LAVVDAEG-HMTRLRRLGKVQMLAQAAEEH 61
>3qbx_A Anhydro-N-acetylmuramic acid kinase; acetate and sugar kinases,
HSP70, actin superfamily, anhydro-N-actetylmuramic acid
binding; HET: AH0; 2.10A {Pseudomonas aeruginosa} PDB:
3qbw_A*
Length = 371
Score = 31.4 bits (72), Expect = 0.12
Identities = 11/87 (12%), Positives = 26/87 (29%), Gaps = 13/87 (14%)
Query: 39 ADGVDIAIVKKSGKVSAL-------EDEIQTRLKELNVEESSATHVLGRLFPFDDR-GLV 90
DG+DI ++++ + + L ++ + L V + + R +
Sbjct: 13 LDGMDIVLIEQGDRTTLLASHYLPMPAGLREDILALCVPGPDEIARAAEV---EQRWVAL 69
Query: 91 HAYWAPNFWAFYNTADKAAVVLGKRFH 117
A + +G H
Sbjct: 70 AAQGVRELLLQQQMSPDEVRAIG--SH 94
Score = 26.4 bits (59), Expect = 5.0
Identities = 5/21 (23%), Positives = 12/21 (57%)
Query: 9 ADGVDIAIVKKSGKVSALEDE 29
DG+DI ++++ + + L
Sbjct: 13 LDGMDIVLIEQGDRTTLLASH 33
>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 = 28.2 bits (63), Expect = 1.1
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 37 DAADG--VDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLG 79
DA G V++ V + G + ++ ++ EE S +V+G
Sbjct: 243 DAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSFNNVIG 287
>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 = 27.2 bits (61), Expect = 1.9
Identities = 11/45 (24%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 37 DAADG--VDIAIVKKSGKVSALEDEIQTRLKELNVEESSATHVLG 79
DA G V++ V + G + ++ ++ EE S +V+G
Sbjct: 168 DAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSFNNVIG 212
>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming),
cytidine 5 triphosphate synthase, ammonia lyase; 2.30A
{Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB:
2ad5_A*
Length = 545
Score = 27.5 bits (62), Expect = 2.4
Identities = 6/20 (30%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 28 DEIQTRIALDAADGVDIAIV 47
+ I+ R+ L+ +G D+ +V
Sbjct: 121 NAIKERV-LEGGEGHDVVLV 139
>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 = 27.1 bits (59), Expect = 3.0
Identities = 23/132 (17%), Positives = 41/132 (31%), Gaps = 35/132 (26%)
Query: 43 DIAIVKKSGKVSALE--DEIQTRLKELNVEESSATH--------VL----------GRLF 82
D + K VS L+ +++ L EL ++ +
Sbjct: 122 DNQVFAK-YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180
Query: 83 PFDDRGLVHAYWAPNFWAFYNTADKAAVVLGKRFHLISSNVTNTMTRGLVENSQHVVLPS 142
F +W N N+ + +L K + I N T+ ++S ++ L
Sbjct: 181 DF------KIFWL-NL-KNCNSPETVLEMLQKLLYQIDPNWTS-----RSDHSSNIKLR- 226
Query: 143 IEPCTCFLLTLL 154
I L LL
Sbjct: 227 IHSIQAELRRLL 238
>2de6_D Ferredoxin component of carbazole; electron transfer complex,
rieske non-heme iron oxygenase system, terminal
oxygenase; 1.80A {Pseudomonas resinovorans} PDB: 2de5_D
1vck_A 2de7_D*
Length = 115
Score = 26.1 bits (58), Expect = 3.2
Identities = 6/38 (15%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 21 GKVSALEDEIQTRIALDAADGVDIAIVKKSGKVSALED 58
S ++ T ++ +A+ + + A ED
Sbjct: 9 CAASDMQPG--TIRRVNRVGAAPLAVYRVGDQFYATED 44
Score = 25.7 bits (57), Expect = 4.2
Identities = 4/26 (15%), Positives = 10/26 (38%)
Query: 3 GIALDAADGVDIAIVKKSGKVSALED 28
++ +A+ + + A ED
Sbjct: 19 IRRVNRVGAAPLAVYRVGDQFYATED 44
>3gce_A Ferredoxin component of carbazole 1,9A- dioxygenase; rieske
ferredoxin, 2Fe-2S, electron transfer, oxidoreductase;
2.00A {Nocardioides aromaticivorans}
Length = 121
Score = 25.4 bits (56), Expect = 5.9
Identities = 7/38 (18%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 21 GKVSALEDEIQTRIALDAADGVDIAIVKKSGKVSALED 58
+ L+ + T DG ++ +V+ V A+ +
Sbjct: 15 ATLDQLKPGVPTAFD---VDGDEVMVVRDGDSVYAISN 49
>1u2m_A Histone-like protein HLP-1; coiled coil, chaperone; 2.30A
{Escherichia coli} SCOP: f.48.1.1 PDB: 1sg2_A
Length = 143
Score = 25.6 bits (56), Expect = 6.4
Identities = 5/53 (9%), Positives = 18/53 (33%)
Query: 18 KKSGKVSALEDEIQTRIALDAADGVDIAIVKKSGKVSALEDEIQTRLKELNVE 70
++ ++ +E ++Q ++ + K V A + + +
Sbjct: 34 GRASELQRMETDLQAKMKKLQSMKAGSDRTKLEKDVMAQRQTFAQKAQAFEQD 86
>3d89_A Rieske domain-containing protein; CAsp target, rieske ferredoxin,
[2Fe-2S] cluster, protein ST initiative, PSI; 2.07A
{Mus musculus}
Length = 157
Score = 25.7 bits (56), Expect = 6.8
Identities = 4/38 (10%), Positives = 13/38 (34%), Gaps = 3/38 (7%)
Query: 21 GKVSALEDEIQTRIALDAADGVDIAIVKKSGKVSALED 58
G+ + + + ++ I G+ A++
Sbjct: 21 GREEDIRKSERMTAVVH---DREVVIFYHKGEYHAMDI 55
Score = 25.3 bits (55), Expect = 7.1
Identities = 3/20 (15%), Positives = 8/20 (40%)
Query: 9 ADGVDIAIVKKSGKVSALED 28
++ I G+ A++
Sbjct: 36 VHDREVVIFYHKGEYHAMDI 55
>3cqy_A Anhydro-N-acetylmuramic acid kinase; APC7501, SO_1313, structural
genomics, PSI-2, shewanella one MR-1, protein structure
initiative; 2.30A {Shewanella oneidensis}
Length = 370
Score = 25.6 bits (57), Expect = 8.5
Identities = 21/88 (23%), Positives = 32/88 (36%), Gaps = 14/88 (15%)
Query: 39 ADGVDIAIVKKSGKVSAL--------EDEIQTRLKELNVEESSATHVLGRLFPFDDR-GL 89
DGVD +V +G+ L + L+ L + + + LGRL D G
Sbjct: 16 MDGVDAVLVDFAGEQPQLIGTHTETIPTHLLKGLQRLCLPGTDEINRLGRL---DRSVGK 72
Query: 90 VHAYWAPNFWAFYNTADKAAVVLGKRFH 117
+ A N A A + +G H
Sbjct: 73 LFALAVNNLLAKTKIAKDEIIAIG--SH 98
>3dmb_A Putative general stress protein 26 with A PNP-OXI fold; PNP-oxidase
like fold, structural genomics; HET: MSE; 2.30A
{Xanthomonas campestris PV}
Length = 147
Score = 24.9 bits (54), Expect = 9.4
Identities = 10/55 (18%), Positives = 18/55 (32%)
Query: 48 KKSGKVSALEDEIQTRLKELNVEESSATHVLGRLFPFDDRGLVHAYWAPNFWAFY 102
K + ++ L + + + G L D +V W P A+Y
Sbjct: 55 KDNALIAMLGQGRRVIGAFSSKGHDLFASISGSLREDTDPAVVDRLWNPYVAAWY 109
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 0.136 0.394
Gapped
Lambda K H
0.267 0.0802 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,420,991
Number of extensions: 140840
Number of successful extensions: 431
Number of sequences better than 10.0: 1
Number of HSP's gapped: 431
Number of HSP's successfully gapped: 37
Length of query: 159
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 73
Effective length of database: 4,300,587
Effective search space: 313942851
Effective search space used: 313942851
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: 53 (24.1 bits)