RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6604
(85 letters)
>3tkf_A Transaldolase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta
barrel/TIM barrel; HET: I22 EPE; 1.50A {Francisella
tularensis subsp} PDB: 3te9_A* 3upb_A* 3tk7_A* 3tno_A*
4e0c_A 3igx_A
Length = 345
Score = 99.3 bits (247), Expect = 6e-27
Identities = 32/56 (57%), Positives = 40/56 (71%)
Query: 30 LKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHLINKAVEFGKQNG 85
LK T+VVADTGDFE +KKYKP DATTNPSLIL+A +Y +L+ + + K N
Sbjct: 33 LKQVTMVVADTGDFELIKKYKPVDATTNPSLILKAVKEQKYSNLVAETISKVKANN 88
Score = 35.7 bits (82), Expect = 6e-04
Identities = 12/28 (42%), Positives = 22/28 (78%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
++++ FG +IL++I G+VS+EVDA +
Sbjct: 101 AIEILVSFGIKILDVIEGKVSSEVDARV 128
>3hjz_A Transaldolase B; parachlorococcus, marine, cyanobacteria; HET:
MSE; 1.90A {Prochlorococcus marinus str}
Length = 334
Score = 98.5 bits (245), Expect = 9e-27
Identities = 32/56 (57%), Positives = 40/56 (71%)
Query: 30 LKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHLINKAVEFGKQNG 85
L TVVVADTGD +++KK++P DATTNPSLIL AA P Y LI+KA+E +
Sbjct: 9 LSSMTVVVADTGDLDSIKKFQPRDATTNPSLILAAAKNPDYVKLIDKAIESSENTL 64
Score = 35.7 bits (82), Expect = 7e-04
Identities = 18/28 (64%), Positives = 22/28 (78%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
+D++ + FG EIL II GRVSTEVDA L
Sbjct: 78 VDQVSVFFGKEILKIISGRVSTEVDARL 105
>3cwn_A Transaldolase B; directed evolution, cytoplasm, pentose shunt,
transferase; 1.40A {Escherichia coli} PDB: 3kof_A
1ucw_A* 1onr_A 1i2r_A 1i2q_A 1i2o_A 1i2p_A 1i2n_A
Length = 337
Score = 97.7 bits (243), Expect = 2e-26
Identities = 35/56 (62%), Positives = 42/56 (75%)
Query: 30 LKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHLINKAVEFGKQNG 85
L+ YT VVADTGD AMK Y+P DATTNPSLIL AA +P+Y+ LI+ AV + KQ
Sbjct: 28 LRQYTTVVADTGDIAAMKLYQPQDATTNPSLILNAAQIPEYRKLIDDAVAWAKQQS 83
Score = 34.6 bits (79), Expect = 0.001
Identities = 17/28 (60%), Positives = 21/28 (75%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
DKL + G EIL ++PGR+STEVDA L
Sbjct: 94 TDKLAVNIGLEILKLVPGRISTEVDARL 121
>3cq0_A Putative transaldolase YGR043C; alpha/beta barrel, pentose shunt,
transferase; HET: PG4; 1.90A {Saccharomyces cerevisiae}
Length = 339
Score = 95.4 bits (237), Expect = 1e-25
Identities = 35/72 (48%), Positives = 49/72 (68%), Gaps = 3/72 (4%)
Query: 17 PGRVSTEVDASL--KLKDY-TVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHL 73
P +V S +LK T VVAD+GDFEA+ KY+P D+TTNPSLIL A+ + +Y
Sbjct: 4 PSEKKQKVATSSLEQLKKAGTHVVADSGDFEAISKYEPQDSTTNPSLILAASKLEKYARF 63
Query: 74 INKAVEFGKQNG 85
I+ AVE+G+++G
Sbjct: 64 IDAAVEYGRKHG 75
Score = 37.2 bits (86), Expect = 2e-04
Identities = 19/28 (67%), Positives = 25/28 (89%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
MDK+++ FGT+IL ++PGRVSTEVDA L
Sbjct: 86 MDKILVEFGTQILKVVPGRVSTEVDARL 113
>2e1d_A Transaldolase; pentose phosphate pathway, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.00A {Mus musculus} SCOP:
c.1.10.1 PDB: 2cwn_A 1f05_A
Length = 331
Score = 95.4 bits (237), Expect = 1e-25
Identities = 36/56 (64%), Positives = 44/56 (78%)
Query: 30 LKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHLINKAVEFGKQNG 85
LK +T VVADTGDF A+ +YKP DATTNPSLIL AA MP YQ L+ +A+ +GK+ G
Sbjct: 15 LKQFTTVVADTGDFNAIDEYKPQDATTNPSLILAAAQMPAYQELVEEAIAYGKKLG 70
Score = 36.1 bits (83), Expect = 4e-04
Identities = 21/28 (75%), Positives = 23/28 (82%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
+DKL +LFG EIL IPGRVSTEVDA L
Sbjct: 81 IDKLFVLFGAEILKKIPGRVSTEVDARL 108
>3m16_A Transaldolase; dimer, molecular replac swiss-model, structural
genomics, PSI-2, protein structure initiative; 2.79A
{Oleispira antarctica}
Length = 329
Score = 93.5 bits (232), Expect = 6e-25
Identities = 34/56 (60%), Positives = 43/56 (76%)
Query: 30 LKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQYQHLINKAVEFGKQNG 85
LK T VVADTGD EA+K++KP DATTNPSLIL+AA + YQHLI +A+++ Q
Sbjct: 13 LKAMTTVVADTGDIEAIKQFKPVDATTNPSLILKAAKLANYQHLIEEAIDWALQIK 68
Score = 38.0 bits (88), Expect = 1e-04
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 1 MDKLVILFGTEILNIIPGRVSTEVDASL 28
DKL + G E+L IPG +STEVDA L
Sbjct: 82 GDKLAVNIGCEVLTSIPGVISTEVDARL 109
>3clm_A Transaldolase; YP_208650.1, structural genomics, joint cente
structural genomics, JCSG, protein structure
initiative, PS transferase; HET: MSE; 1.14A {Neisseria
gonorrhoeae}
Length = 352
Score = 76.0 bits (187), Expect = 3e-18
Identities = 9/60 (15%), Positives = 20/60 (33%), Gaps = 1/60 (1%)
Query: 27 SLKLKDYTVVVADTGDFEAMKKYKPTDATTNPSLILQAATMPQ-YQHLINKAVEFGKQNG 85
+ L + + + +G+ M K T+NP++ +A Y +
Sbjct: 14 QIWLDNLSRSLVQSGELAQMLKQGVCGVTSNPAIFQKAFAGDALYADEVAALKRQNLSPK 73
Score = 34.4 bits (79), Expect = 0.001
Identities = 8/27 (29%), Positives = 9/27 (33%), Gaps = 2/27 (7%)
Query: 2 DKLVILFGTEILNIIPGRVSTEVDASL 28
D + E G VS EV L
Sbjct: 89 DVCLAEH--ESTGGKTGFVSLEVSPEL 113
>3r5e_A Transaldolase; pentose phosphate pathway, TIM barrel fold,
transferase; 2.10A {Corynebacterium glutamicum}
Length = 360
Score = 63.3 bits (154), Expect = 9e-14
Identities = 12/61 (19%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
Query: 27 SLKLKDYTVVVADTGDF-EAMKKYKPTDATTNPSLILQAATMPQ-YQHLINKAVEFGKQN 84
S L D + +G+ + +++ TTNP++ A + Y I + G
Sbjct: 13 STWLDDLSRERITSGNLSQVIEEKSVVGVTTNPAIFAAAMSKGDSYDAQIAELKAAGASV 72
Query: 85 G 85
Sbjct: 73 D 73
Score = 35.6 bits (82), Expect = 7e-04
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 11 EILNIIPGRVSTEVDASL 28
E N GRVS EVD +
Sbjct: 96 ESSNGYDGRVSIEVDPRI 113
>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 = 35.7 bits (81), Expect = 4e-04
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 5/26 (19%)
Query: 43 FEA-MKKYKPTDATTNPSLILQAATM 67
+A +K Y A P+L ++ ATM
Sbjct: 25 LQASLKLYADDSA---PALAIK-ATM 46
>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 = 31.9 bits (72), Expect = 0.015
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 17/82 (20%)
Query: 6 ILFGTEI---LNIIPGRVSTEVDASLK-LKDYTVVVADTGDFEAMKKYKPTDATTNPSLI 61
L G +I + T + + + +K+Y A K + S +
Sbjct: 95 YLEGNDIHALAAKLLQENDTTLVKTKELIKNY---------ITARIMAKRPFDKKSNSAL 145
Query: 62 LQAATMPQYQHLINKAVEFGKQ 83
+A Q L+ A+ FG Q
Sbjct: 146 FRAVGEGNAQ-LV--AI-FGGQ 163
>3r8r_A Transaldolase; pentose phosphate pathway, schiff bases; 1.90A
{Bacillus subtilis}
Length = 212
Score = 29.5 bits (67), Expect = 0.086
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 39 DTGDFEAMKKYKPTDA----TTNPSLILQAATMPQYQHL 73
DT + + +++ TTNPSL+ + A + + L
Sbjct: 6 DTANIDEIREANELGILAGVTTNPSLVAKEANVSFHDRL 44
>1l6w_A Fructose-6-phosphate aldolase 1; alpha-beta barrel, domain
swapping, lyase; 1.93A {Escherichia coli} SCOP:
c.1.10.1
Length = 220
Score = 28.8 bits (65), Expect = 0.15
Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 39 DTGDFEAMKKYKPTDA----TTNPSLILQA 64
DT D A+K TTNPS+I
Sbjct: 6 DTSDVVAVKALSRIFPLAGVTTNPSIIAAG 35
>1wx0_A Transaldolase; structural genomics, riken structural
genomics/proteomics initiative, RSGI, transferas; 2.27A
{Thermus thermophilus HB8} SCOP: c.1.10.1
Length = 223
Score = 28.0 bits (63), Expect = 0.25
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 4/30 (13%)
Query: 39 DTGDFEAMKKYKPTDA----TTNPSLILQA 64
DT E +++ TTNP+L+ +A
Sbjct: 6 DTASLEEIREIAAWGVLSGVTTNPTLVAKA 35
>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 = 27.9 bits (61), Expect = 0.41
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 12/51 (23%)
Query: 32 DYTVVVADTGDF-----EAMKKYKPTDATTNPSLILQAATMPQYQHLINKA 77
Y +V DF E + K TD +L+ A M + + + +A
Sbjct: 540 KYERLVNAILDFLPKIEENLICSKYTD-------LLRIALMAEDEAIFEEA 583
>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation;
HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB:
1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A*
1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T*
2zit_A* 1u2r_A* 3b78_A* 3b8h_A*
Length = 842
Score = 27.3 bits (60), Expect = 0.61
Identities = 14/32 (43%), Positives = 22/32 (68%), Gaps = 4/32 (12%)
Query: 12 ILNII--PGRV--STEVDASLKLKDYTVVVAD 39
++N+I PG V S+EV A+L++ D +VV D
Sbjct: 99 LINLIDSPGHVDFSSEVTAALRVTDGALVVVD 130
>1vpx_A Protein (transaldolase (EC 2.2.1.2)); TM0295, structural
genomics, JOI for structural genomics, JCSG; HET: GOL;
2.40A {Thermotoga maritima} SCOP: c.1.10.1
Length = 230
Score = 27.2 bits (61), Expect = 0.62
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 4/30 (13%)
Query: 39 DTGDFEAMKKYKPTDA----TTNPSLILQA 64
DT + E +KK TTNP+LI +
Sbjct: 18 DTANLEEIKKGVEWGIVDGVTTNPTLISKE 47
>3s1x_A Probable transaldolase; alpha-beta barrel, conformational
selection, domain swapping transferase; HET: I22; 1.65A
{Thermoplasma acidophilum} PDB: 3s1u_A* 3s1v_A* 3s0c_A*
3s1w_A*
Length = 223
Score = 26.8 bits (60), Expect = 0.80
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 4/32 (12%)
Query: 39 DTGDFEAMKKYKPTDA----TTNPSLILQAAT 66
DT + + ++ TTNP+LI + A
Sbjct: 6 DTANIDEIRTGVNWGIVDGVTTNPTLISKEAV 37
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly,
ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1
Length = 142
Score = 25.6 bits (57), Expect = 1.9
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 5/37 (13%)
Query: 18 GRVSTEVDASLKLKDYTVVV-AD----TGDFEAMKKY 49
GR+++ V L + V+V A+ TG+ E +
Sbjct: 12 GRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSK 48
>3q0h_A T cell immunoreceptor with IG and ITIM domains; immune receptor,
adhesion, structural genomics, NEW YORK STR genomics
research consortium, nysgrc; 1.70A {Homo sapiens} PDB:
3rq3_A 3udw_A* 3ucr_A
Length = 117
Score = 25.3 bits (55), Expect = 2.0
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 8 FGTEILNIIPGRVSTEVDASLKLKDYTVVVADTGDFE 44
G I RV+ L L+ + V DTG++
Sbjct: 53 LGWHISPSFKDRVAPGPGLGLTLQS--LTVNDTGEYF 87
>2xdt_A Endoplasmic reticulum aminopeptidase 1; glycoprotein,
metal-binding, metalloprotease, protease, hydrolase,
adaptive immunity; HET: NAG; 2.70A {Homo sapiens} PDB:
2yd0_A* 3qnf_A* 3mdj_A*
Length = 897
Score = 25.1 bits (55), Expect = 3.0
Identities = 10/64 (15%), Positives = 25/64 (39%), Gaps = 1/64 (1%)
Query: 18 GRVSTEVDASLKLKDYTVVVADTGDFEAM-KKYKPTDATTNPSLILQAATMPQYQHLINK 76
+ + + L + V T ++ + KY+ + ++T S I A Q + +
Sbjct: 712 SNGNLSLPVDVTLAVFAVGAQSTEGWDFLYSKYQFSLSSTEKSQIEFALCRTQNKEKLQW 771
Query: 77 AVEF 80
++
Sbjct: 772 LLDE 775
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 24.7 bits (54), Expect = 3.4
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 5/37 (13%)
Query: 18 GRVSTEVDASLKLKDYTVVV-AD----TGDFEAMKKY 49
GR+++ V L VVV A+ +G+F K
Sbjct: 11 GRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLK 47
>3i8b_A Xylulose kinase; strain ATCC 15703 / DSM 20083, 11200J,,
transferase, structural genomics, PSI-2; 2.00A
{Bifidobacterium adolescentis ATCC15703}
Length = 515
Score = 24.3 bits (53), Expect = 5.8
Identities = 3/25 (12%), Positives = 8/25 (32%)
Query: 18 GRVSTEVDASLKLKDYTVVVADTGD 42
+ A ++ ++ GD
Sbjct: 250 PVKADPAIAGKNVEGGCLLAPGGGD 274
>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT,
histidine biosynthesis, hiszg, alloste evolution; 2.90A
{Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*
Length = 344
Score = 24.1 bits (53), Expect = 6.2
Identities = 6/55 (10%), Positives = 14/55 (25%), Gaps = 15/55 (27%)
Query: 8 FGTEILNIIPGRVSTEVDA-----------SLKLKDYTVVVADTGDFEAMKKYKP 51
G E+ G + + + L L + F+ + +
Sbjct: 143 IGIELF----GESADKSELEILSLALQVIEQLGLNKTVFEIGSAKFFQRLCQLAD 193
>1r29_A B-cell lymphoma 6 protein; BTB domain, transcriptional repression,
transcription; 1.30A {Homo sapiens} SCOP: d.42.1.1 PDB:
1r28_A 1r2b_A 3bim_A 3lbz_A* 3e4u_A
Length = 127
Score = 24.1 bits (53), Expect = 6.4
Identities = 5/24 (20%), Positives = 13/24 (54%)
Query: 61 ILQAATMPQYQHLINKAVEFGKQN 84
++ A Q +H+++ +F K +
Sbjct: 103 VMATAMYLQMEHVVDTCRKFIKAS 126
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome,
ribosome, eukaryotic initiation factor 60S,
translation, large ribosomal subunit; 3.52A
{Tetrahymena thermophila} PDB: 4a1a_I 4a1c_I 4a1e_I
Length = 198
Score = 24.1 bits (52), Expect = 6.8
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 5/37 (13%)
Query: 18 GRVSTEVDASLKLKDYTVVV-AD----TGDFEAMKKY 49
GR+++ V L VVV + +G +
Sbjct: 16 GRLASYVAKELLSGQRIVVVRTEAINISGSLFRNRVK 52
>2yy9_A Zinc finger and BTB domain-containing protein 48; mouse, HKR3,
structural genomics, NPPSFA; 2.60A {Mus musculus}
Length = 135
Score = 23.7 bits (52), Expect = 7.0
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 61 ILQAATMPQYQHLINKAVEFGKQN 84
+L AA + + F Q
Sbjct: 95 VLLAAKELRVPEAVELCQSFQPQT 118
>1wuu_A Galactokinase; galactosemia, GHMP superfamily, transferase; HET:
GLA ANP; 2.50A {Homo sapiens} SCOP: d.14.1.5 d.58.26.7
Length = 399
Score = 23.9 bits (52), Expect = 7.6
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 1 MDKLVILFGTE--ILNIIPGRVSTEVDASLKLKDYTVVVADTG 41
MD+ + L G + L I + T L V++ ++
Sbjct: 192 MDQFISLMGQKGHALLIDCRSLETS-LVPLSDPKLAVLITNSN 233
>3b84_A Zinc finger and BTB domain-containing protein 48; krueppel related
zinc finger protein 3, HKR3, ZBTB48, Z finger, oncogene;
1.74A {Homo sapiens}
Length = 119
Score = 23.7 bits (52), Expect = 7.6
Identities = 4/24 (16%), Positives = 8/24 (33%)
Query: 61 ILQAATMPQYQHLINKAVEFGKQN 84
+L AA + + F +
Sbjct: 94 VLLAARELRVPEAVELCQSFKPKT 117
>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component
system, gene regulation, transcription factor, KDP
potassium transport system; 2.00A {Escherichia coli}
SCOP: c.23.1.1 PDB: 1zh4_A
Length = 121
Score = 23.6 bits (52), Expect = 7.9
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 24 VDASLKLKDYTVVVADTGDFEAMKKYKPTDATTNPSLIL 62
+ +L+ V A+T + + AT P LI+
Sbjct: 17 LRTALEGDGMRVFEAETLQ-RGLLEA----ATRKPDLII 50
>3izc_K 60S ribosomal protein RPL16 (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
3izs_K 3o58_P 3o5h_P 3u5e_O 3u5i_O
Length = 199
Score = 23.8 bits (51), Expect = 8.5
Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 5/38 (13%)
Query: 18 GRVSTEVDASLKLKDYTVVV-AD----TGDFEAMKKYK 50
GR+++ V L VVV A+ +G+F K
Sbjct: 17 GRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKY 54
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 0.133 0.367
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,249,025
Number of extensions: 63917
Number of successful extensions: 206
Number of sequences better than 10.0: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 44
Length of query: 85
Length of database: 6,701,793
Length adjustment: 53
Effective length of query: 32
Effective length of database: 5,221,980
Effective search space: 167103360
Effective search space used: 167103360
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: 51 (23.7 bits)