RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12567
(142 letters)
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation;
NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A 2l6y_A
2l6z_A
Length = 46
Score = 82.5 bits (204), Expect = 3e-22
Identities = 37/45 (82%), Positives = 41/45 (91%)
Query: 76 TEGRECVNCGAISTPLWRRDGTGHYLCNACGLYHKMNGMNRPLVK 120
+E RECVNCGA +TPLWRRD TGHYLCNACGLYHKMNG NRPL++
Sbjct: 2 SEARECVNCGATATPLWRRDRTGHYLCNACGLYHKMNGQNRPLIR 46
Score = 55.1 bits (133), Expect = 9e-12
Identities = 24/29 (82%), Positives = 26/29 (89%)
Query: 18 TEGRECVNCGAISTPLWRRDGTGHYLCNA 46
+E RECVNCGA +TPLWRRD TGHYLCNA
Sbjct: 2 SEARECVNCGATATPLWRRDRTGHYLCNA 30
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR
{Caenorhabditis elegans}
Length = 71
Score = 69.1 bits (169), Expect = 7e-17
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 76 TEGRECVNCGAISTPLWRRDGTG-HYLCNACGLYHKMNGMNRPL 118
+ +C NC T WR + CNAC +Y + RP+
Sbjct: 6 KKSFQCSNCSVTETIRWRNIRSKEGIQCNACFIYQRKYNKTRPV 49
Score = 44.9 bits (106), Expect = 2e-07
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 1/30 (3%)
Query: 18 TEGRECVNCGAISTPLWRRDGTG-HYLCNA 46
+ +C NC T WR + CNA
Sbjct: 6 KKSFQCSNCSVTETIRWRNIRSKEGIQCNA 35
>2vut_I AREA, nitrogen regulatory protein AREA; transcription regulation,
protein-protein interactions, metal-binding, nitrate
assimilation; HET: NAD; 2.3A {Emericella nidulans} SCOP:
g.39.1.1 PDB: 2vus_I* 2vuu_I*
Length = 43
Score = 66.3 bits (162), Expect = 4e-16
Identities = 22/40 (55%), Positives = 28/40 (70%)
Query: 79 RECVNCGAISTPLWRRDGTGHYLCNACGLYHKMNGMNRPL 118
C NC +TPLWRR+ G LCNACGL+ K++G+ RPL
Sbjct: 2 TTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPL 41
Score = 44.4 bits (105), Expect = 1e-07
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 21 RECVNCGAISTPLWRRDGTGHYLCNA 46
C NC +TPLWRR+ G LCNA
Sbjct: 2 TTCTNCFTQTTPLWRRNPEGQPLCNA 27
>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3;
activator, DNA-binding, metal-binding, nucleus; HET:
DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A*
1gat_A* 1gau_A*
Length = 63
Score = 64.3 bits (156), Expect = 4e-15
Identities = 22/42 (52%), Positives = 29/42 (69%)
Query: 77 EGRECVNCGAISTPLWRRDGTGHYLCNACGLYHKMNGMNRPL 118
G C NC +T LWRR+ G +CNACGLY+K++ +NRPL
Sbjct: 6 AGTSCANCQTTTTTLWRRNANGDPVCNACGLYYKLHNINRPL 47
Score = 45.0 bits (106), Expect = 1e-07
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 19 EGRECVNCGAISTPLWRRDGTGHYLCNA 46
G C NC +T LWRR+ G +CNA
Sbjct: 6 AGTSCANCQTTTTTLWRRNANGDPVCNA 33
>4gat_A Nitrogen regulatory protein AREA; DNA binding protein,
transcription factor, zinc binding domain, complex
(transcription regulation/DNA); HET: DNA; NMR
{Emericella nidulans} SCOP: g.39.1.1 PDB: 5gat_A*
6gat_A* 7gat_A*
Length = 66
Score = 63.5 bits (154), Expect = 1e-14
Identities = 22/41 (53%), Positives = 28/41 (68%)
Query: 78 GRECVNCGAISTPLWRRDGTGHYLCNACGLYHKMNGMNRPL 118
C NC +TPLWRR+ G LCNACGL+ K++G+ RPL
Sbjct: 9 PTTCTNCFTQTTPLWRRNPEGQPLCNACGLFLKLHGVVRPL 49
Score = 44.7 bits (105), Expect = 2e-07
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 20 GRECVNCGAISTPLWRRDGTGHYLCNA 46
C NC +TPLWRR+ G LCNA
Sbjct: 9 PTTCTNCFTQTTPLWRRNPEGQPLCNA 35
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 35.8 bits (82), Expect = 0.002
Identities = 8/27 (29%), Positives = 10/27 (37%)
Query: 81 CVNCGAISTPLWRRDGTGHYLCNACGL 107
C C + R G +C CGL
Sbjct: 24 CPECKVYPPKIVERFSEGDVVCALCGL 50
Score = 25.8 bits (56), Expect = 5.5
Identities = 5/22 (22%), Positives = 7/22 (31%)
Query: 23 CVNCGAISTPLWRRDGTGHYLC 44
C C + R G +C
Sbjct: 24 CPECKVYPPKIVERFSEGDVVC 45
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
DNA-binding, DNA- directed RNA polymerase, isopeptide
bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Length = 345
Score = 33.0 bits (74), Expect = 0.021
Identities = 10/49 (20%), Positives = 13/49 (26%)
Query: 59 MSRFLFASLPVEDIEYFTEGRECVNCGAISTPLWRRDGTGHYLCNACGL 107
M+R C C + R G +C CGL
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALCGL 50
Score = 25.3 bits (54), Expect = 9.0
Identities = 7/45 (15%), Positives = 10/45 (22%)
Query: 1 MSRFLFASLPVEDIEYFTEGRECVNCGAISTPLWRRDGTGHYLCN 45
M+R C C + R G +C
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCA 46
>2d74_B Translation initiation factor 2 beta subunit; protein complex;
2.80A {Pyrococcus furiosus} PDB: 2dcu_B*
Length = 148
Score = 30.3 bits (68), Expect = 0.12
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 73 EYFTEGRECVNCGAISTPLWRRDGTGHYLCNACG 106
+Y E C CG+ T + +RD C ACG
Sbjct: 99 KYIKEYVICPVCGSPDTKIIKRDRFHFLKCEACG 132
>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
two domain protein, mixed alpha-beta structure; NMR
{Methanothermobacterthermautotrophicus} SCOP: d.241.1.1
g.59.1.1
Length = 138
Score = 29.9 bits (67), Expect = 0.17
Identities = 9/34 (26%), Positives = 12/34 (35%)
Query: 73 EYFTEGRECVNCGAISTPLWRRDGTGHYLCNACG 106
+Y + C C T + R C ACG
Sbjct: 97 DYVNKFVICHECNRPDTRIIREGRISLLKCEACG 130
>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2,
initiation factor 2 alpha subunit, initiation factor 2
beta subunit; 2.80A {Sulfolobus solfataricus} PDB:
2nxu_A 2qmu_C* 3v11_C*
Length = 139
Score = 28.0 bits (62), Expect = 0.84
Identities = 8/26 (30%), Positives = 14/26 (53%)
Query: 81 CVNCGAISTPLWRRDGTGHYLCNACG 106
C C ++ T L + + + +C ACG
Sbjct: 106 CSTCKSLDTILKKEKKSWYIVCLACG 131
>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR
{Homo sapiens}
Length = 170
Score = 28.1 bits (62), Expect = 0.84
Identities = 12/58 (20%), Positives = 18/58 (31%), Gaps = 11/58 (18%)
Query: 73 EYFTEGRECVNCGAISTPLWRRDGTGHYL--CNACG------LYHKMNGMNRPLVKQP 122
+ + C C T L C ACG +HK+ ++K P
Sbjct: 91 GFIKKFVLCPECENPETDLHVNPKKQTIGNSCKACGYRGMLDTHHKLCTF---ILKNP 145
>2oz4_A Intercellular adhesion molecule 1; IGSF domain, structural
plasticity, cell-surface dimerizatio adhesion; HET: NAG
FUC; 2.70A {Homo sapiens} SCOP: b.1.1.3 b.1.1.4 b.1.1.4
PDB: 1p53_A*
Length = 265
Score = 26.9 bits (59), Expect = 2.4
Identities = 15/72 (20%), Positives = 25/72 (34%), Gaps = 2/72 (2%)
Query: 28 AISTPLWRRDGTGHYLCNARLFSTSFTGYFIMSRFLFASLPVEDIE-YFTEGRE-CVNCG 85
A + +GT C L + S ++ + F + V + +EG E V C
Sbjct: 62 ASVSVTAEDEGTQRLTCAVILGNQSQETLQTVTIYSFPAPNVILTKPEVSEGTEVTVKCE 121
Query: 86 AISTPLWRRDGT 97
A +G
Sbjct: 122 AHPRAKVTLNGV 133
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP:
g.59.1.1
Length = 36
Score = 24.4 bits (53), Expect = 3.0
Identities = 8/26 (30%), Positives = 10/26 (38%)
Query: 81 CVNCGAISTPLWRRDGTGHYLCNACG 106
C CG T + + C ACG
Sbjct: 3 CRECGKPDTKIIKEGRVHLLKCMACG 28
>2f9y_B Acetyl-coenzyme A carboxylase carboxyl transferas beta; zinc
ribbon, crotonase superfamily, spiral domain, ligase;
3.20A {Escherichia coli} SCOP: c.14.1.4
Length = 304
Score = 26.4 bits (59), Expect = 3.2
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 10/53 (18%)
Query: 81 CVNCGAISTPLWRRD-GTGHYLCNACGLYHKMNGMNRPLVKQPRRLRFDRGNF 132
C +CG + L+R + +C C + +M NR D G+
Sbjct: 27 CDSCGQV---LYRAELERNLEVCPKCDHHMRMTARNR------LHSLLDEGSL 70
>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 = 26.6 bits (58), Expect = 3.9
Identities = 20/123 (16%), Positives = 32/123 (26%), Gaps = 58/123 (47%)
Query: 15 EYFTEGRECVNCGAISTPLWRRDGTGHYLCNARLFST--SFTGYFI--MSRFL--FASLP 68
+YF E R+ L+ T G I + L
Sbjct: 168 DYFEELRD-------------------------LYQTYHVLVGDLIKFSAETLSELIRTT 202
Query: 69 VEDIEYFTEG---------------RECVNCGAISTPLWRRDGTG-----HYL--CNACG 106
++ + FT+G ++ + IS PL G HY+ G
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL-----IGVIQLAHYVVTAKLLG 257
Query: 107 LYH 109
Sbjct: 258 FTP 260
>2f9i_B Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta;
zinc ribbon, crotonase superfamily, spiral domain; 1.98A
{Staphylococcus aureus}
Length = 285
Score = 26.0 bits (58), Expect = 4.3
Identities = 9/53 (16%), Positives = 17/53 (32%), Gaps = 10/53 (18%)
Query: 81 CVNCGAISTPLWRRD-GTGHYLCNACGLYHKMNGMNRPLVKQPRRLRFDRGNF 132
C C I ++ ++ +C C + + R D G+F
Sbjct: 33 CPKCKKI---MYTKELAENLNVCFNCDHHIALTAYKR------IEAISDEGSF 76
>3eh1_A Protein transport protein SEC24B; copii coat protein, vesicle
transport, transport signal sequence, cytoplasm,
endoplasmic reticulum; 1.80A {Homo sapiens} PDB: 2nut_B
2nup_B 3egd_B 3egx_B
Length = 751
Score = 25.7 bits (55), Expect = 8.6
Identities = 6/27 (22%), Positives = 8/27 (29%)
Query: 81 CVNCGAISTPLWRRDGTGHYLCNACGL 107
C +C P + CN C
Sbjct: 88 CRSCRTYINPFVSFIDQRRWKCNLCYR 114
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 25.3 bits (55), Expect = 9.0
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 75 FTEGRECVNCGAISTPLWRRDGTGHYLCNACGL 107
T C+NCG + RR + C+ACG
Sbjct: 372 VTHVMMCMNCGCDFSLTLRR-----HHCHACGK 399
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
0.329 0.143 0.480
Gapped
Lambda K H
0.267 0.0535 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,293,645
Number of extensions: 125466
Number of successful extensions: 388
Number of sequences better than 10.0: 1
Number of HSP's gapped: 384
Number of HSP's successfully gapped: 43
Length of query: 142
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,356,429
Effective search space: 252672882
Effective search space used: 252672882
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (24.3 bits)