RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11065
(138 letters)
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 106
Score = 88.7 bits (220), Expect = 4e-24
Identities = 30/71 (42%), Positives = 45/71 (63%), Gaps = 1/71 (1%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
I V VP+ +VGVVIG+ G+MIKK+QN+ G R+QF Q P ++ + G PD+ + A
Sbjct: 13 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGP-EKIAHIMGPPDRCEHAA 71
Query: 107 ARIEELIDSVM 117
I +L+ S+
Sbjct: 72 RIINDLLQSLR 82
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA
binding protein, KH domain, KSRP, posttranscriptional
regulation, mRNA decay; NMR {Homo sapiens}
Length = 164
Score = 81.4 bits (201), Expect = 1e-20
Identities = 31/91 (34%), Positives = 46/91 (50%), Gaps = 1/91 (1%)
Query: 27 REFNENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMRED 86
R I V VP+ +VGVVIG+ G+MIKK+QN+ G R+QF Q
Sbjct: 73 ERDQGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGT 132
Query: 87 DPSDRRCMLSGSPDQVQEARARIEELIDSVM 117
P ++ + G PD+ + A I +L+ S+
Sbjct: 133 GP-EKIAHIMGPPDRCEHAARIINDLLQSLR 162
Score = 74.1 bits (182), Expect = 8e-18
Identities = 21/71 (29%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDP-SDRRCMLSGSPDQVQE 104
V ++ +P G+VIGKGG+ IK+LQ G ++ +Q + D+ + G P +VQ+
Sbjct: 3 VQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQ 62
Query: 105 ARARIEELIDS 115
A + +++
Sbjct: 63 ACEMVMDILRE 73
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET:
DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1
Length = 174
Score = 80.3 bits (198), Expect = 4e-20
Identities = 32/81 (39%), Positives = 47/81 (58%), Gaps = 1/81 (1%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
+I V +P+ AVG+VIG+ G+MIKK+QN+ G R+QF P +R ++G PD+ Q
Sbjct: 3 HMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTP-ERIAQITGPPDRAQH 61
Query: 105 ARARIEELIDSVMVEQFSGAN 125
A I +L+ SV G
Sbjct: 62 AAEIITDLLRSVQAGNPGGPG 82
Score = 67.2 bits (164), Expect = 3e-15
Identities = 26/99 (26%), Positives = 41/99 (41%), Gaps = 2/99 (2%)
Query: 17 GRNNDNFGNMREFNENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGA 76
G R + VP G++IGKGG+ IK + ++GA
Sbjct: 76 GNPGGPGPGGRGRGRGQGNWNMGPPGGLQEFNFIVPTGKTGLIIGKGGETIKSISQQSGA 135
Query: 77 RVQFVQMRE--DDPSDRRCMLSGSPDQVQEARARIEELI 113
R++ + DP+ + + G+P Q+ AR IEE I
Sbjct: 136 RIELQRNPPPNADPNMKLFTIRGTPQQIDYARQLIEEKI 174
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA
binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1
Length = 82
Score = 76.9 bits (190), Expect = 7e-20
Identities = 17/81 (20%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
++ +P +G +IG+ G I +++ +GA+++ + + S R+ ++GS +
Sbjct: 6 TTHELTIPNNLIGCIIGRQGANINEIRQMSGAQIK-IANPVEGSSGRQVTITGSAASISL 64
Query: 105 ARARIEELIDSVMVEQFSGAN 125
A+ I + S E+ G +
Sbjct: 65 AQYLINARLSS---EKGMGCS 82
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA
binding protein, transcription factor, hnRNP K, CT
element, C-MYC oncogene; NMR {Homo sapiens} SCOP:
d.51.1.1 PDB: 1khm_A
Length = 89
Score = 77.0 bits (190), Expect = 8e-20
Identities = 22/69 (31%), Positives = 41/69 (59%), Gaps = 1/69 (1%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
QV +PK G +IGKGG IK++++E+GA ++ + + DR ++G+ DQ+Q A+
Sbjct: 16 TQVTIPKDLAGSIIGKGGQRIKQIRHESGASIK-IDEPLEGSEDRIITITGTQDQIQNAQ 74
Query: 107 ARIEELIDS 115
++ +
Sbjct: 75 YLLQNSVKQ 83
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain,
cell projection, cytoplasm, nucleus, phosphoprotein,
translation regulation; 2.75A {Homo sapiens}
Length = 163
Score = 79.0 bits (195), Expect = 8e-20
Identities = 23/89 (25%), Positives = 38/89 (42%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
E++QV +P AVG +IGK G IK+L A ++ D R +++G P+ +
Sbjct: 3 EMVQVFIPAQAVGAIIGKKGQHIKQLSRFASASIKIAPPETPDSKVRMVIITGPPEAQFK 62
Query: 105 ARARIEELIDSVMVEQFSGANFDKLRSTV 133
A+ RI + + V
Sbjct: 63 AQGRIYGKLKEENFFGPKEEVKLETHIRV 91
Score = 71.3 bits (175), Expect = 8e-17
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRC-MLSGSPDQVQEA 105
+ VP +A G VIGKGG + +LQN T A V + + D +D+ + G Q A
Sbjct: 87 THIRVPASAAGRVIGKGGKTVNELQNLTAAEVVVPRDQTPDENDQVIVKIIGHFYASQMA 146
Query: 106 RARIEELIDSVM 117
+ +I +++ V
Sbjct: 147 QRKIRDILAQVK 158
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain,
alpha-beta fold RNA-binding motif, immune system; 2.00A
{Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A
Length = 76
Score = 76.5 bits (189), Expect = 8e-20
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 2/73 (2%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDP--SDRRCMLSGSPDQV 102
E++++ VP+ VG ++GKGG + + Q TGAR+Q + E P +RR ++GSP
Sbjct: 3 ELVEMAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAAT 62
Query: 103 QEARARIEELIDS 115
Q A+ I + +
Sbjct: 63 QAAQYLISQRVTY 75
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta
fold, DNA binding protein; 0.95A {Homo sapiens} SCOP:
d.51.1.1 PDB: 1zzj_A 1zzi_A
Length = 82
Score = 75.8 bits (187), Expect = 2e-19
Identities = 26/80 (32%), Positives = 47/80 (58%), Gaps = 6/80 (7%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
QV +PK G +IGKGG IK++++E+GA ++ + + DR ++G+ DQ+Q A+
Sbjct: 9 TQVTIPKDLAGSIIGKGGQRIKQIRHESGASIK-IDEPLEGSEDRIITITGTQDQIQNAQ 67
Query: 107 ARIEELIDSVMVEQFSGANF 126
++ + +Q+SG F
Sbjct: 68 YLLQNSV-----KQYSGKFF 82
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo
sapiens}
Length = 85
Score = 74.7 bits (184), Expect = 5e-19
Identities = 24/87 (27%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 28 EFNENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQ-MRED 86
+F++N +G V ++ +P G+VIGKGG+ IK+LQ G ++ +Q ++
Sbjct: 2 QFHDNANGGQNG-----TVQEIMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQN 56
Query: 87 DPSDRRCMLSGSPDQVQEARARIEELI 113
D+ + G P +VQ+A + +++
Sbjct: 57 TNVDKPLRIIGDPYKVQQACEMVMDIL 83
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding
motif, protein/RNA structure, RNA binding protein/RNA
complex; 2.40A {Homo sapiens} SCOP: d.51.1.1
Length = 87
Score = 74.7 bits (184), Expect = 5e-19
Identities = 25/73 (34%), Positives = 42/73 (57%), Gaps = 2/73 (2%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDP--SDRRCMLSGSPDQV 102
E++++ VP+ VG ++GKGG + + Q TGAR+Q + E P +RR ++GSP
Sbjct: 3 ELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAAT 62
Query: 103 QEARARIEELIDS 115
Q A+ I + +
Sbjct: 63 QAAQYLISQRVTY 75
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding,
DNA-binding, nucleus, phosph ribonucleoprotein,
RNA-binding, RNA binding protein; NMR {Homo sapiens}
Length = 160
Score = 76.3 bits (188), Expect = 7e-19
Identities = 21/88 (23%), Positives = 41/88 (46%)
Query: 26 MREFNENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMRE 85
+ E + +++ VP + G +IGKGG IK+++ TGA+VQ
Sbjct: 70 LEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDML 129
Query: 86 DDPSDRRCMLSGSPDQVQEARARIEELI 113
+ ++R ++G P + E +I ++
Sbjct: 130 PNSTERAITIAGIPQSIIECVKQICVVM 157
Score = 71.3 bits (175), Expect = 7e-17
Identities = 20/83 (24%), Positives = 42/83 (50%), Gaps = 3/83 (3%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
I++ + VG +IGK G+ +KK++ E+GAR+ E + +R L+G + + +A
Sbjct: 6 TIRLLMHGKEVGSIIGKKGESVKKMREESGARINI---SEGNCPERIITLAGPTNAIFKA 62
Query: 106 RARIEELIDSVMVEQFSGANFDK 128
A I + ++ + + +
Sbjct: 63 FAMIIDKLEEDISSSMTNSTAAS 85
>1x4n_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1 PDB: 2opu_A
Length = 92
Score = 74.8 bits (184), Expect = 8e-19
Identities = 25/77 (32%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
+ VP VG +IG+GG+ I ++Q E+G ++Q P +R CML+G+P+ VQ A+
Sbjct: 17 EEYKVPDGMVGFIIGRGGEQISRIQQESGCKIQIAPDSGGLP-ERSCMLTGTPESVQSAK 75
Query: 107 ARIEELIDSVMVEQFSG 123
++++++ SG
Sbjct: 76 RLLDQIVEKGRSGPSSG 92
>1x4m_A FAR upstream element binding protein 1; KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.51.1.1
Length = 94
Score = 74.8 bits (184), Expect = 8e-19
Identities = 24/72 (33%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPS-DRRCMLSGSPDQVQ 103
V ++ +P + G+VIGKGG+ IK+LQ G ++ +Q + D+ ++G P +VQ
Sbjct: 15 AVQEIMIPASKAGLVIGKGGETIKQLQERAGVKMVMIQDGPQNTGADKPLRITGDPYKVQ 74
Query: 104 EARARIEELIDS 115
+A+ + ELI
Sbjct: 75 QAKEMVLELIRD 86
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH
domain, hairpin, RNA-binding protein complex; HET: 5BU;
1.94A {Homo sapiens} PDB: 2ann_A*
Length = 178
Score = 76.0 bits (187), Expect = 1e-18
Identities = 23/74 (31%), Positives = 41/74 (55%), Gaps = 2/74 (2%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDP--SDRRCMLSGSPDQVQ 103
++V +P A G +IGKGG I +LQ ETGA ++ + ++ P ++R C++ G+ + +
Sbjct: 7 FLKVLIPSYAAGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTERVCLIQGTIEALN 66
Query: 104 EARARIEELIDSVM 117
I E I +
Sbjct: 67 AVHGFIAEKIREMP 80
Score = 71.0 bits (174), Expect = 1e-16
Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 1/97 (1%)
Query: 18 RNNDNFGNMREFNENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGAR 77
R E + + +++ VP + G++IGKGG +K + ++GA
Sbjct: 77 REMPQNVAKTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAW 136
Query: 78 VQFVQ-MREDDPSDRRCMLSGSPDQVQEARARIEELI 113
VQ Q + +R +SG P+Q ++A I + I
Sbjct: 137 VQLSQKPDGINLQNRVVTVSGEPEQNRKAVELIIQKI 173
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 107
Score = 73.0 bits (179), Expect = 5e-18
Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMRE--DDPSDRRCMLSGSPDQVQE 104
+ +P G+VIG+GG+ +K + +TGA V+ + DP+ + ++ GSP Q+
Sbjct: 9 MTFSIPTHKCGLVIGRGGENVKAINQQTGAFVEISRQLPPNGDPNFKLFIIRGSPQQIDH 68
Query: 105 ARARIEELIDS 115
A+ IEE I+
Sbjct: 69 AKQLIEEKIEG 79
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA
binding protein/DNA complex; 1.60A {Homo sapiens}
Length = 76
Score = 71.9 bits (177), Expect = 6e-18
Identities = 15/69 (21%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
++ +P +G +IG+ G I +++ +GA+++ + + +DR+ ++GS + A+
Sbjct: 7 HELTIPNDLIGCIIGRQGAKINEIRQMSGAQIK-IANPVEGSTDRQVTITGSAASISLAQ 65
Query: 107 ARIEELIDS 115
I + S
Sbjct: 66 YLINVRLSS 74
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding
protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1
PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A*
Length = 73
Score = 68.1 bits (167), Expect = 2e-16
Identities = 20/69 (28%), Positives = 40/69 (57%), Gaps = 3/69 (4%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
I++ + VG +IGK G+ +KK++ E+GAR + + E + +R L+G + + +A
Sbjct: 6 TIRLLMHGKEVGSIIGKKGESVKKMREESGAR---INISEGNCPERIITLAGPTNAIFKA 62
Query: 106 RARIEELID 114
A I + ++
Sbjct: 63 FAMIIDKLE 71
>1we8_A Tudor and KH domain containing protein; structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Mus musculus} SCOP: d.51.1.1
Length = 104
Score = 68.3 bits (167), Expect = 3e-16
Identities = 23/86 (26%), Positives = 42/86 (48%), Gaps = 1/86 (1%)
Query: 36 RGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPS-DRRCM 94
G + E T Q+ VP+ +VG +IG+GG+ I+ + +GA++ + E R
Sbjct: 6 SGILTENTPVFEQLSVPQRSVGRIIGRGGETIRSICKASGAKITCDKESEGTLLLSRLIK 65
Query: 95 LSGSPDQVQEARARIEELIDSVMVEQ 120
+SG+ +V A+ I E + +
Sbjct: 66 ISGTQKEVAAAKHLILEKVSEDEELR 91
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 94
Score = 67.4 bits (165), Expect = 4e-16
Identities = 19/69 (27%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
V +PK VIGK G+ ++ L+ +T ++Q R DDPS+ + ++G+ + +++A
Sbjct: 18 SATVAIPKEHHRFVIGKNGEKLQDLELKTATKIQI--PRPDDPSN-QIKITGTKEGIEKA 74
Query: 106 RARIEELID 114
R + +
Sbjct: 75 RHEVLLISA 83
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 97
Score = 67.2 bits (164), Expect = 6e-16
Identities = 13/70 (18%), Positives = 30/70 (42%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
+ V V +IG+ G +I +++ E +QF + + + ++G + AR
Sbjct: 19 LSVTVDPKYHPKIIGRKGAVITQIRLEHDVNIQFPDKDDGNQPQDQITITGYEKNTEAAR 78
Query: 107 ARIEELIDSV 116
I ++ +
Sbjct: 79 DAILRIVGEL 88
>2dgr_A Ring finger and KH domain-containing protein 1; structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 83
Score = 66.1 bits (161), Expect = 1e-15
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 4/67 (5%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
IQV VP VG+V+G G IK++Q T + + ++G P+ V AR
Sbjct: 12 IQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVT----PGRDKEPVFAVTGMPENVDRAR 67
Query: 107 ARIEELI 113
IE I
Sbjct: 68 EEIEAHI 74
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 62.5 bits (152), Expect = 4e-14
Identities = 16/73 (21%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
V + +IG G I+K+ +E ++F + P ++G P+ V+EA
Sbjct: 19 EDVPLDHRVHARIIGARGKAIRKIMDEFKVDIRFP--QSGAPDPNCVTVTGLPENVEEAI 76
Query: 107 ARIEELIDSVMVE 119
I L + + +
Sbjct: 77 DHILNLEEEYLAD 89
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 104
Score = 62.5 bits (152), Expect = 6e-14
Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 3/75 (4%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEAR 106
I+V VP VIG+ G I+K+ +E + + SD ++G + A+
Sbjct: 19 IEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHV--PAPELQSD-IIAITGLAANLDRAK 75
Query: 107 ARIEELIDSVMVEQF 121
A + E + + EQ
Sbjct: 76 AGLLERVKELQAEQE 90
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens}
SCOP: d.51.1.1 PDB: 1vih_A
Length = 71
Score = 61.2 bits (149), Expect = 6e-14
Identities = 14/69 (20%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
+ +++ + +IGK G I +++++ V+ D + G P VQ+
Sbjct: 5 DYVEINIDHKFHRHLIGKSGANINRIKDQYKVSVRIPP---DSEKSNLIRIEGDPQGVQQ 61
Query: 105 ARARIEELI 113
A+ + EL
Sbjct: 62 AKRELLELA 70
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains,
type I domains, fragIle X mental retardation protein,
RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A
Length = 144
Score = 58.1 bits (140), Expect = 7e-12
Identities = 18/81 (22%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGA-RVQFVQMREDDPSDRRCM----L 95
+ + + VP+ VG VIGK G +I+++ +++G RV+ E + M
Sbjct: 63 FLEFAEDVIQVPRNLVGKVIGKNGKLIQEIVDKSGVVRVRIEAENEKNVPQEEGMVPFVF 122
Query: 96 SGSPDQVQEARARIEELIDSV 116
G+ D + A ++ ++ +
Sbjct: 123 VGTKDSIANATVLLDYHLNYL 143
Score = 50.8 bits (121), Expect = 4e-09
Identities = 18/74 (24%), Positives = 31/74 (41%), Gaps = 6/74 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSP-DQVQE 104
Q V + +G+ IG G I++ + G V + D + G D V++
Sbjct: 5 HEQFIVREDLMGLAIGTHGANIQQARKVPG-----VTAIDLDEDTCTFHIYGEDQDAVKK 59
Query: 105 ARARIEELIDSVMV 118
AR+ +E D + V
Sbjct: 60 ARSFLEFAEDVIQV 73
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA
binding, cell cycle; 2.79A {Caenorhabditis elegans}
Length = 376
Score = 51.5 bits (122), Expect = 1e-08
Identities = 12/74 (16%), Positives = 24/74 (32%), Gaps = 6/74 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDM--IKKLQNETGARVQF----VQMREDDPSDRRCMLSGSP 99
+ + ++ GD + + ET +Q V DP ++ ++G
Sbjct: 31 TLNMEFESQYYSLMTSDNGDHENVASIMAETNTLIQLPDRSVGGTTPDPFAQQVTITGYF 90
Query: 100 DQVQEARARIEELI 113
V AR +
Sbjct: 91 GDVDRARMLMRRNC 104
Score = 41.5 bits (96), Expect = 3e-05
Identities = 13/72 (18%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 47 IQVCVPKAAVGVVIGK--GGDMIKKLQNETGARVQF--VQMREDDPSDRRCM-LSGSPDQ 101
+ + V V+G ++ ++ ET + + R + + + + G+ D
Sbjct: 188 LHFTLSTYYVDQVLGSSSTAQLMPVIERETTTIISYPCYNNRNETRGNIYEIKVVGNIDN 247
Query: 102 VQEARARIEELI 113
V +AR I +L+
Sbjct: 248 VLKARRYIMDLL 259
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing
factor, RNA binding protein; 2.30A {Pyrococcus
horikoshii} PDB: 3aev_B
Length = 219
Score = 50.1 bits (119), Expect = 2e-08
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 1/76 (1%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
+ V +PK + V+IGK G K+++ T ++ + + P V +
Sbjct: 34 QEEYVKIPKDRIAVLIGKKGQTKKEIEKRTKTKITIDSETGEVW-ITSTKETEDPLAVWK 92
Query: 105 ARARIEELIDSVMVEQ 120
AR + + E+
Sbjct: 93 ARDIVLAIGRGFSPER 108
Score = 49.7 bits (118), Expect = 3e-08
Identities = 14/64 (21%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 51 VPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIE 110
G +IG+ G + ++ +GA V + + G+P Q++ A+ IE
Sbjct: 135 ALPRVRGRIIGRKGRTRQIIEEMSGASVSV--------YGKTVAIIGNPIQIEIAKTAIE 186
Query: 111 ELID 114
+L
Sbjct: 187 KLAR 190
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 95
Score = 47.9 bits (114), Expect = 2e-08
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 4/69 (5%)
Query: 47 IQVCVPKAAVGVVIGKGGDMIKKLQNE-TGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
++V +P +IG G +I+ + E G + F E SD ++ G V++A
Sbjct: 19 VEVSIPAKLHNSLIGTKGRLIRSIMEECGGVHIHF--PVEGSGSD-TVVIRGPSSDVEKA 75
Query: 106 RARIEELID 114
+ ++ L +
Sbjct: 76 KKQLLHLAE 84
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 48.0 bits (115), Expect = 2e-07
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 6/74 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
+I V +P +G VIG MI ++Q +TGA + EDD + + + + A
Sbjct: 599 IITVKIPVDKIGEVIGPKRQMINQIQEDTGAEITI----EDDGTIY--IGAADGPAAEAA 652
Query: 106 RARIEELIDSVMVE 119
RA I + + E
Sbjct: 653 RATINGIANPTSPE 666
>1tua_A Hypothetical protein APE0754; structural genomics, protein
structure initiative, MCSG, four layers alpha-beta
sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1
d.51.1.1
Length = 191
Score = 45.0 bits (106), Expect = 8e-07
Identities = 12/63 (19%), Positives = 24/63 (38%), Gaps = 8/63 (12%)
Query: 52 PKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEE 111
K G +IG+GG + ++ T + + + G ++ A+ IE
Sbjct: 105 LKRIKGRIIGEGGRARRTIEEMTDTYINV--------GEYEVAIIGDYERAMAAKQAIEM 156
Query: 112 LID 114
L +
Sbjct: 157 LAE 159
Score = 42.7 bits (100), Expect = 7e-06
Identities = 13/76 (17%), Positives = 25/76 (32%), Gaps = 1/76 (1%)
Query: 45 EVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQE 104
I V V +G VIG G++ ++ TG + P + +
Sbjct: 4 PRIYVKVKPERLGAVIGPRGEVKAEIMRRTGTVITVDT-ENSMVIVEPEAEGIPPVNLMK 62
Query: 105 ARARIEELIDSVMVEQ 120
A ++ + E+
Sbjct: 63 AAEVVKAISLGFPPEK 78
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 44.8 bits (107), Expect = 2e-06
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
V V VP + +G GG +KKLQ ETG + D+ + + + +P + EA
Sbjct: 568 VETVQVPLSKRAKFVGPGGYNLKKLQAETGVTISQ----VDEETFS--VFAPTPSAMHEA 621
Query: 106 RARIEELI 113
R I E+
Sbjct: 622 RDFITEIC 629
>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol
metabolism, beta-alpha-alpha-beta-BETA-alpha structure,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.51.1.1
Length = 102
Score = 42.2 bits (99), Expect = 3e-06
Identities = 16/69 (23%), Positives = 28/69 (40%), Gaps = 5/69 (7%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
V V P +IGK G + K+ + V + + D + L G + V A
Sbjct: 28 VSSVAAPSWLHRFIIGKKGQNLAKITQQMPK----VHIEFTEGED-KITLEGPTEDVSVA 82
Query: 106 RARIEELID 114
+ +IE ++
Sbjct: 83 QEQIEGMVK 91
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 43.3 bits (103), Expect = 7e-06
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
+ + + + VIGKGG +I+ L ETG ++ EDD + + + + ++ + A
Sbjct: 561 IHTIKINPDKIKDVIGKGGSVIRALTEETGTTIEI----EDDGTVK--IAATDGEKAKHA 614
Query: 106 RARIEELIDSVMV 118
RIEE+ + V
Sbjct: 615 IRRIEEITAEIEV 627
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 42.9 bits (102), Expect = 8e-06
Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 46 VIQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEA 105
+ + +P + VIG GG +I+++ TGA+V DD + + + +++ A
Sbjct: 571 IETINIPTDKIREVIGSGGKVIREIVATTGAKVDI----NDDGVVK--VSASDGAKIKAA 624
Query: 106 RARIEELIDSVMV 118
I+ + D V
Sbjct: 625 IDWIKSITDEAEV 637
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 40.7 bits (95), Expect = 1e-05
Identities = 16/75 (21%), Positives = 29/75 (38%), Gaps = 10/75 (13%)
Query: 56 VGVVIGKGGDMIKKLQNETGARVQ-------FVQMREDDPSDRR--CMLSG-SPDQVQEA 105
V G G ++ +Q ETGA+V ++ + +S P+ + A
Sbjct: 30 KEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGREAFEPMYIYISHPKPEGLAAA 89
Query: 106 RARIEELIDSVMVEQ 120
+ E L+ +V E
Sbjct: 90 KKLCENLLQTVHAEY 104
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA
recognition, complex E, KH domain, QUA2 homology; NMR
{Homo sapiens} SCOP: d.51.1.1
Length = 131
Score = 36.8 bits (85), Expect = 6e-04
Identities = 13/78 (16%), Positives = 33/78 (42%), Gaps = 16/78 (20%)
Query: 56 VGVVIGKGGDMIKKLQNETGARVQFV---------------QMREDDPSDRRCMLSG-SP 99
VG++IG G+ +K ++ E A++ QM + +++ +
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTANTM 83
Query: 100 DQVQEARARIEELIDSVM 117
+ V++A +I ++ +
Sbjct: 84 ENVKKAVEQIRNILKQGI 101
>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 = 33.4 bits (75), Expect = 0.011
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 22/46 (47%)
Query: 67 IKKLQNETGARVQFVQMREDD--PSDRRCMLSGSPDQVQEARARIE 110
+KKLQ +++ DD P+ L+ +A +E
Sbjct: 22 LKKLQAS-------LKLYADDSAPA-----LA--------IKATME 47
>2cxc_A NUSA; transcription termination, RNA binding protein, archaeal
NUS domain, structural genomics, NPPSFA; 2.00A
{Aeropyrum pernix} PDB: 2cy1_A
Length = 144
Score = 31.1 bits (71), Expect = 0.049
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 49 VCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQMRED 86
V + G IG+GG +IK L+ G ++ V+ D
Sbjct: 40 FLVSEGEAGRAIGRGGRLIKLLREALGKNIEVVEYSSD 77
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins,
RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 30.7 bits (69), Expect = 0.080
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 56 VGVVIGKGGDMIKKLQNETGARVQ 79
VG ++G G K+L+ ETG ++
Sbjct: 19 VGRILGPRGLTAKQLEAETGCKIM 42
>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 = 30.8 bits (69), Expect = 0.15
Identities = 16/75 (21%), Positives = 27/75 (36%), Gaps = 11/75 (14%)
Query: 25 NMREFNENGDGRGGMW----EVTWEVIQVCVPKAAVGVVIGKG-----GDMIKKLQNETG 75
++R + + R V WE KA + G G G + + ++ TG
Sbjct: 467 DLRVLSGSISERIVDCIIRLPVKWE--TTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 76 ARVQFVQMREDDPSD 90
RV + +P D
Sbjct: 525 VRVIVAGTLDINPDD 539
Score = 29.2 bits (65), Expect = 0.49
Identities = 18/113 (15%), Positives = 33/113 (29%), Gaps = 40/113 (35%)
Query: 31 ENGDGRGGMWEVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNETGARV----------QF 80
E G GM + + + A+ V ++++ TG V Q+
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYV-------VERVGKRTGWLVEIVNYNVENQQY 1853
Query: 81 VQMREDDPSDRRCMLSGSPDQVQEA----------RARIEELIDSVMVEQFSG 123
V +G + + I EL S+ +E+ G
Sbjct: 1854 V-------------AAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEG 1893
>2xzm_C KH domain containing protein; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_C
Length = 243
Score = 29.7 bits (67), Expect = 0.26
Identities = 7/33 (21%), Positives = 11/33 (33%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNE 73
T ++ + VIG G K+L
Sbjct: 43 RRTPTKTEIRIKATKPQQVIGVEGKKHKELTQF 75
>2zkq_c 40S ribosomal protein S3E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 243
Score = 29.4 bits (66), Expect = 0.36
Identities = 7/33 (21%), Positives = 14/33 (42%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNE 73
VT ++ + V+G+ G I++L
Sbjct: 40 RVTPTRTEIIILATRTQNVLGEKGRRIRELTAV 72
>3u5c_D RP13, YS3, 40S ribosomal protein S3; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_B 3o30_C 3o2z_C 3u5g_D 1s1h_C
3jyv_C*
Length = 240
Score = 28.6 bits (64), Expect = 0.54
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNE 73
VT +V + V+G+ G I +L
Sbjct: 40 RVTPTKTEVIIRATRTQDVLGENGRRINELTLL 72
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 28.6 bits (65), Expect = 0.55
Identities = 6/13 (46%), Positives = 7/13 (53%)
Query: 57 GVVIGKGGDMIKK 69
+VIG G IK
Sbjct: 244 KMVIGNKGAKIKT 256
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 28.6 bits (65), Expect = 0.58
Identities = 7/23 (30%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 57 GVVIGKGGDMIKKLQNETGARVQ 79
++IGK G +K++ AR +
Sbjct: 253 PIIIGKKGQRLKEIG--KRARQE 273
>1chu_A Protein (L-aspartate oxidase); flavoenzyme, NAD biosynthesis, FAD,
oxidoreductase; 2.20A {Escherichia coli} SCOP: a.7.3.1
c.3.1.4 d.168.1.1 PDB: 1knr_A* 1knp_A*
Length = 540
Score = 28.8 bits (65), Expect = 0.64
Identities = 8/27 (29%), Positives = 11/27 (40%), Gaps = 7/27 (25%)
Query: 102 VQEARARIEELIDSVMVEQFSGANFDK 128
AR+ ++ LID G FD
Sbjct: 87 ASNARSCVQWLID-------QGVLFDT 106
>3iz6_B 40S ribosomal protein S3 (S3P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 1s1h_C 3jyv_C*
Length = 227
Score = 28.5 bits (64), Expect = 0.65
Identities = 7/33 (21%), Positives = 15/33 (45%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNE 73
VT ++ + V+G+ G I++L +
Sbjct: 40 RVTPMRTEIIIRATRTQNVLGEKGRRIRELTSV 72
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 28.2 bits (64), Expect = 0.72
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 2/23 (8%)
Query: 57 GVVIGKGGDMIKKLQNETGARVQ 79
+VIG+GG IK++ R Q
Sbjct: 243 AIVIGEGGRKIKEIG--QATRKQ 263
>3g4d_A (+)-delta-cadinene synthase isozyme XC1; cyclase, lyase, magnesium,
metal-binding; 2.40A {Gossypium arboreum} PDB: 3g4f_A*
Length = 554
Score = 28.2 bits (62), Expect = 0.97
Identities = 11/41 (26%), Positives = 17/41 (41%)
Query: 79 QFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVE 119
+F REDD S C + QEA + ++S +
Sbjct: 457 KFKHRREDDCSAIECYMEEYGVTAQEAYDVFNKHVESAWKD 497
>1re5_A 3-carboxy-CIS,CIS-muconate cycloisomerase; homotetramer, fumarase
class II cycloisomerase, molecular EV isomerase; HET:
CIT; 2.60A {Pseudomonas putida} SCOP: a.127.1.1
Length = 450
Score = 28.0 bits (63), Expect = 1.0
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 100 DQVQEARARIEELIDSVMVEQFSGA 124
+ R R++EL ++V QF GA
Sbjct: 171 GALTRHRQRLQELRPRLLVLQFGGA 195
>2fel_A 3-carboxy-CIS,CIS-muconate lactonizing enzyme; biodegradation,
sulphonic acids, 3-sulphomuconate; 2.20A {Agrobacterium
tumefaciens} PDB: 2fen_A
Length = 359
Score = 28.0 bits (63), Expect = 1.1
Identities = 6/25 (24%), Positives = 10/25 (40%)
Query: 100 DQVQEARARIEELIDSVMVEQFSGA 124
++ R+E + QF GA
Sbjct: 173 APLERHLLRLETFAQNGFALQFGGA 197
>3c8t_A Fumarate lyase; structural genomics, PSI-2, protein structure
initiat YORK SGX research center for structural
genomics, nysgxrc; 2.20A {Mesorhizobium SP}
Length = 451
Score = 28.0 bits (63), Expect = 1.1
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 100 DQVQEARARIEELIDSVMVEQFSGA 124
AR+EE+ V+V +FSGA
Sbjct: 169 SAFDRHAARLEEISPRVLVVEFSGA 193
>2ong_A 4S-limonene synthase; monoterpene synthase, monoterpene cyclase,
geranyl diphosphate, 2 fluorogeranyl diphosphate linalyl
diphosphate; HET: FPG BTB; 2.70A {Mentha spicata} PDB:
2onh_A*
Length = 543
Score = 27.8 bits (61), Expect = 1.1
Identities = 11/40 (27%), Positives = 16/40 (40%)
Query: 82 QMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQF 121
R D P +C +S EAR ++ LI V +
Sbjct: 449 VSRGDVPKSLQCYMSDYNASEAEARKHVKWLIAEVWKKMN 488
>2zvr_A Uncharacterized protein TM_0416; hyperthermophIle, ketohexose
3-epimeras tagatose 3-epimerase, isomerase; 2.20A
{Thermotoga maritima}
Length = 290
Score = 27.8 bits (62), Expect = 1.1
Identities = 6/50 (12%), Positives = 20/50 (40%)
Query: 65 DMIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELID 114
+ +K L E + + + +D + + + ++A R+ + +
Sbjct: 71 NEVKILSEELNLPICAIGTGQAYLADGLSLTHPNDEIRKKAIERVVKHTE 120
>2e5v_A L-aspartate oxidase; archaea, oxidoreductase; HET: FAD; 2.09A
{Sulfolobus tokodaii}
Length = 472
Score = 27.9 bits (63), Expect = 1.1
Identities = 6/27 (22%), Positives = 9/27 (33%), Gaps = 7/27 (25%)
Query: 102 VQEARARIEELIDSVMVEQFSGANFDK 128
EA+ IE G F++
Sbjct: 78 TSEAKNVIETFES-------WGFEFEE 97
>1q5n_A 3-carboxy-CIS,CIS-muconate cycloisomerase; CMLE, aromatic
degradation; 2.30A {Acinetobacter calcoaceticus} SCOP:
a.127.1.1
Length = 454
Score = 27.6 bits (62), Expect = 1.2
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 100 DQVQEARARIEELIDSVMVEQFSGA 124
+ RI + V+V Q GA
Sbjct: 175 SAFKRDLDRINAIKARVLVAQLGGA 199
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA,
transfer RNA, 16S ribosomal subunit, RRF; 3.00A
{Escherichia coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C*
2wwl_C 3oar_C 3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C
3ofo_C 3r8o_C 4a2i_C
Length = 206
Score = 27.5 bits (62), Expect = 1.3
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 57 GVVIGKGGDMIKKLQNE----TGARVQ 79
G+VIGK G+ ++KL+ G Q
Sbjct: 73 GIVIGKKGEDVEKLRKVVADIAGVPAQ 99
>3bbn_C Ribosomal protein S3; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 218
Score = 27.1 bits (61), Expect = 1.4
Identities = 5/33 (15%), Positives = 14/33 (42%)
Query: 41 EVTWEVIQVCVPKAAVGVVIGKGGDMIKKLQNE 73
+ ++IQV + ++I ++ L+
Sbjct: 66 QKRIDLIQVIIHMGFPKLLIENRPQGVEDLKIN 98
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase;
1.95A {Salvia fruticosa}
Length = 569
Score = 27.4 bits (60), Expect = 1.5
Identities = 17/108 (15%), Positives = 33/108 (30%), Gaps = 9/108 (8%)
Query: 18 RNNDNFGNMREFNENGDGRGGMWEVTWEVIQVCVPKAAVGVV--------IGKGGDMIKK 69
+ ++ E+ +N G + + I + I +
Sbjct: 405 YYKGHKPSLEEYMKNSWISIGGIPILSHLFFRLTDSIEEEAAESMHKYHDIVRASCTILR 464
Query: 70 LQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVM 117
L ++ G R D P +C ++ +EAR + LID
Sbjct: 465 LADDMGTS-LDEVERGDVPKSVQCYMNEKNASEEEAREHVRSLIDQTW 511
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 27.2 bits (61), Expect = 1.7
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 4/27 (14%)
Query: 57 GVVIGKGGDMIKKLQNE----TGARVQ 79
GVVIG+GG+ I+ L+ E TG V
Sbjct: 74 GVVIGRGGERIRVLREELAKLTGKNVA 100
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 27.2 bits (61), Expect = 1.9
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 57 GVVIGKGGDMIKKLQNE----TGARVQ 79
G+VIGK G+ ++KL+ G Q
Sbjct: 74 GIVIGKKGEDVEKLRKVVADIAGVPAQ 100
>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1,
putative MARR-like transcription regulator, MAR
structural genomics; 2.38A {Bacillus cereus}
Length = 139
Score = 26.5 bits (59), Expect = 2.3
Identities = 7/40 (17%), Positives = 17/40 (42%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
E +P+D+R L + +E + +++ + E
Sbjct: 79 TEKNPNDQRETLVYLTKKGEETKKQVDVQYSDFLKENCGC 118
>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator,
APC5857, structural genomics, protein structure
initiative; 1.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.28
Length = 146
Score = 26.6 bits (59), Expect = 2.4
Identities = 10/40 (25%), Positives = 14/40 (35%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R DRR + A IE + SV + +G
Sbjct: 84 RLAVAEDRRAKHIVLTPKADVLIADIEAIAASVRNDVLTG 123
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription
regulator, activator, DNA-binding, repressor; HET: SAL;
2.30A {Salmonella typhimurium} SCOP: a.4.5.28 PDB:
3qpt_A* 3q5f_A*
Length = 166
Score = 26.2 bits (58), Expect = 2.7
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R+ SDRR ++ + A +EE+I E +G
Sbjct: 100 RQTCASDRRAKRIKLTEKAEPLIAEMEEVIHKTRGEILAG 139
>2hr3_A Probable transcriptional regulator; MCSG, structural genomics,
PSI-2, protein structure initiati midwest center for
structural genomics; 2.40A {Pseudomonas aeruginosa}
SCOP: a.4.5.28
Length = 147
Score = 26.3 bits (58), Expect = 2.8
Identities = 12/52 (23%), Positives = 16/52 (30%), Gaps = 6/52 (11%)
Query: 84 REDDPSDRRCML-----SGSPDQVQEARARIEELIDSVMVEQFSGANFDKLR 130
R DP D R G + RA+ EE + M + L
Sbjct: 82 RHADPQDGRRTRVSLSSEGR-RNLYGNRAKREEWLVRAMHACLDESERALLA 132
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 26.9 bits (60), Expect = 2.8
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 41 EVTWEV-IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFV 81
+VT EV I+ P G+VIGK G +++ TG + +
Sbjct: 97 DVTCEVIIEARKP----GLVIGKYGSTSREIVKNTGWAPKIL 134
>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu
genomics, protein structure initiative, midwest center
for structural genomics; HET: GOL; 2.00A {Rhodococcus
jostii}
Length = 150
Score = 26.2 bits (58), Expect = 3.1
Identities = 12/40 (30%), Positives = 19/40 (47%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R DPSDRR L + ++ + R + +D+ F G
Sbjct: 86 RTLDPSDRRNKLIAATEEGRRLRDDAKARVDAAHGRYFEG 125
>2kr6_A Presenilin-1; protease, alternative splicing, alzheimer disease,
amyloidos apoptosis, cell adhesion, disease mutation;
NMR {Homo sapiens}
Length = 176
Score = 26.4 bits (57), Expect = 3.1
Identities = 13/61 (21%), Positives = 22/61 (36%)
Query: 78 VQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSGANFDKLRSTVLANR 137
V V M E DP +R + S + ++ + FS + S + +R
Sbjct: 2 VWLVNMAEGDPEAQRRVSKNSKYNAESTERESQDTVAENDDGGFSEEWEAQRDSHLGPHR 61
Query: 138 S 138
S
Sbjct: 62 S 62
>2bgi_A Ferredoxin-NADP(H) reductase; ferredoxin(flavodoxin)-NADP(H)
reductase, flavoproteins, electron transfer,
oxidoreductase; HET: FAD HTG; 1.68A {Rhodobacter
capsulatus} PDB: 2bgj_A* 2vnh_A* 2vni_A* 2vnj_A* 2vnk_A*
Length = 272
Score = 26.3 bits (58), Expect = 3.3
Identities = 7/40 (17%), Positives = 15/40 (37%)
Query: 73 ETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEEL 112
+G + + + +P R M+ GS + +E
Sbjct: 209 ASGKVFEDLGIAPMNPETDRAMVCGSLAFNVDVMKVLESY 248
>2vdw_A Vaccinia virus capping enzyme D1 subunit; nucleotidyltransferase,
S-adenosyl-L-methionine, RNA metabolism, mRNA
processing, methyltransferase, poxvirus; HET: SAH; 2.70A
{Vaccinia virus}
Length = 302
Score = 26.3 bits (57), Expect = 3.4
Identities = 12/119 (10%), Positives = 26/119 (21%), Gaps = 17/119 (14%)
Query: 9 SRRWQQGIGRNNDNFGNMREFNENGDGRGGMWEVTWEVIQVCVPKAAVG-VVIGKGGDMI 67
+ N G + + N + + K V + G G D+
Sbjct: 6 RLNPEVSYFTNKRTRGPLGILS-NYVKTLLISMYCSKTFLDDSNKRKVLAIDFGNGADLE 64
Query: 68 KKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSGANF 126
K + + D + R +L + + +
Sbjct: 65 KYFY----GEIALL-----------VATDPDADAIARGNERYNKLNSGIKTKYYKFDYI 108
>3g7q_A Valine-pyruvate aminotransferase; NP_462565.1, structur genomics,
joint center for structural genomics, JCSG, prote
structure initiative; HET: MSE; 1.80A {Salmonella
typhimurium}
Length = 417
Score = 26.5 bits (59), Expect = 3.4
Identities = 9/43 (20%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 80 FVQMREDDPSDRRCM---LSGSPDQVQEARARIEELIDSVMVE 119
F + + P +CM PD+++ + E I+ E
Sbjct: 374 FPGLDKPWPHTHQCMRMNYVPEPDKIEAGVKILAEEIERAWRE 416
>2qdx_A Ferredoxin reductase; oxidoreductase; HET: FAD; 1.55A {Pseudomonas
aeruginosa} PDB: 3crz_A* 1a8p_A*
Length = 257
Score = 26.2 bits (58), Expect = 3.6
Identities = 10/40 (25%), Positives = 20/40 (50%)
Query: 73 ETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEEL 112
+G + + + +P D R M+ GSP ++E A ++
Sbjct: 195 RSGKLFEDIGLPPMNPQDDRAMICGSPSMLEETSAVLDSF 234
>1n1b_A (+)-bornyl diphosphate synthase; terpene synthase fold, isomerase;
2.00A {Salvia officinalis} SCOP: a.102.4.1 a.128.1.3
PDB: 1n1z_A* 1n20_A* 1n21_A* 1n22_A* 1n23_A* 1n24_A*
Length = 549
Score = 26.3 bits (57), Expect = 3.6
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 82 QMREDDPSDRRCMLSGSPDQVQEARARIEELIDS 115
R D P +C + + +EA ++ LI
Sbjct: 456 LARGDVPKTIQCYMKETNASEEEAVEHVKFLIRE 489
>3qfa_C Thioredoxin; protein-protein complex, rossmann fold, HO pyridine
nucleotide disulfide oxidoreductase, electron TRAN
oxidoreductase; HET: FAD; 2.20A {Homo sapiens} PDB:
3qfb_C*
Length = 116
Score = 25.8 bits (57), Expect = 3.6
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 114 DSVMVEQFSGANFDKLRSTV 133
V +FSGAN +KL +T+
Sbjct: 93 KGQKVGEFSGANKEKLEATI 112
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 26.5 bits (59), Expect = 3.6
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 41 EVTWEV-IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQM 83
+ EV I+ P G+VIGK G ++++ + G + V+
Sbjct: 101 PDSGEVIIEAEKP----GLVIGKHGATLREITKQIGWIPKVVRT 140
>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix
binding motif, structural genomics, PSI-2; 2.30A
{Geobacillus stearothermophilus}
Length = 150
Score = 25.9 bits (57), Expect = 4.2
Identities = 8/58 (13%), Positives = 19/58 (32%), Gaps = 6/58 (10%)
Query: 66 MIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
++ +++ R V R D DRR + ++ + + E +
Sbjct: 76 LVDRME-----RNGLVA-RVRDEHDRRVVRIRLLEKGERIIEEVIEKRQRDLANVLES 127
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4}
Length = 444
Score = 26.2 bits (58), Expect = 4.3
Identities = 3/29 (10%), Positives = 11/29 (37%)
Query: 92 RCMLSGSPDQVQEARARIEELIDSVMVEQ 120
R ++ + + I E++ + +
Sbjct: 416 RMSIAADEQTLIDGIKVIGEVVRELYDNK 444
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 26.1 bits (58), Expect = 4.5
Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 8/77 (10%)
Query: 41 EVTWEV-IQVCVPKAAVGVVIGKGGDMIKKLQNETGARVQFVQ---MREDDPSDRRCMLS 96
EV I+ P G+VIGK G+ ++ + + + V+ ++ R +L
Sbjct: 106 PSVGEVLIEAKKP----GLVIGKNGETLRLITQKVKWAPKVVRTPPLQSQTIYSIRQILQ 161
Query: 97 GSPDQVQEARARIEELI 113
++ ++ I
Sbjct: 162 TESKDRRKFLRQVGRNI 178
>1ea9_C Cyclomaltodextrinase; hydrolase, glycosidase; 3.2A {Bacillus SP}
SCOP: b.1.18.2 b.71.1.1 c.1.8.1
Length = 583
Score = 26.2 bits (58), Expect = 4.5
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 85 EDDPSDRRCMLSGSPDQVQEARARIEELI 113
DP R+CM ++ A + +I
Sbjct: 463 GHDPGCRKCMEWDETKHDKDLFAFYQTVI 491
>3m9j_A Thioredoxin; oxidoreductase; 1.10A {Homo sapiens} PDB: 3m9k_A
2hsh_A 1erv_A 2ifq_A 2ifq_B 1auc_A 1eru_A 1ert_A 3kd0_A
1aiu_A 3trx_A 4trx_A 1trs_A 1tru_A 1trv_A 1trw_A 3e3e_A*
1cqg_A 1cqh_A 1mdi_A ...
Length = 105
Score = 25.3 bits (56), Expect = 4.5
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 114 DSVMVEQFSGANFDKLRSTV 133
V +FSGAN +KL +T+
Sbjct: 82 KGQKVGEFSGANKEKLEATI 101
>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene
cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate;
HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A*
Length = 764
Score = 26.4 bits (57), Expect = 4.6
Identities = 21/123 (17%), Positives = 38/123 (30%), Gaps = 15/123 (12%)
Query: 6 FQQSRRWQQGIGRNNDNFGNMREFNENGDGRGGMWEVTWEVIQVCVPKAAVGVV------ 59
+ Q R W E+ + G+ T + I + VV
Sbjct: 582 YVQEREW-----LEAGYIPTFEEYLKTYAISVGLGPCTLQPILLMGELVKDDVVEKVHYP 636
Query: 60 --IGKGGDMIKKLQNETGARVQFVQMREDDPSDRRC-MLSGSPDQVQEARARIEELIDSV 116
+ + + +L N+T Q + R S C M ++A I ++D
Sbjct: 637 SNMFELVSLSWRLTNDTKTY-QAEKARGQQASGIACYMKDNPGATEEDAIKHICRVVDRA 695
Query: 117 MVE 119
+ E
Sbjct: 696 LKE 698
>1ji1_A Alpha-amylase I; beta/alpha barrel, hydrolase; 1.60A
{Thermoactinomyces vulgaris} SCOP: b.1.18.2 b.71.1.1
c.1.8.1 PDB: 1uh3_A* 2d0f_A* 1izj_A 1uh4_A* 1uh2_A*
2d0g_A* 2d0h_A* 1izk_A
Length = 637
Score = 26.3 bits (58), Expect = 4.7
Identities = 8/29 (27%), Positives = 11/29 (37%)
Query: 85 EDDPSDRRCMLSGSPDQVQEARARIEELI 113
DP +RR A A ++LI
Sbjct: 514 GADPDNRRSFDWSQATPSNSAVALTQKLI 542
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural
genomics, MI center for structural genomics, MCSG,
unknown function; 1.78A {Listeria innocua}
Length = 143
Score = 25.7 bits (57), Expect = 4.9
Identities = 9/40 (22%), Positives = 20/40 (50%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
RE DRR L D+ ++ + +++++ + F+G
Sbjct: 83 REISTEDRRISLLSLTDKGRKETTELRDIVEASCEKMFAG 122
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase,
DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x
populus alba} PDB: 3n0g_A*
Length = 555
Score = 25.9 bits (56), Expect = 5.1
Identities = 6/41 (14%), Positives = 12/41 (29%)
Query: 79 QFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVE 119
R + + C + + A + LID +
Sbjct: 455 SAEIARGETANSVSCYMRTKGISEELATESVMNLIDETWKK 495
>1gh2_A Thioredoxin-like protein; redox-active center, electron transport;
2.22A {Homo sapiens} SCOP: c.47.1.1
Length = 107
Score = 25.0 bits (55), Expect = 5.2
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 114 DSVMVEQFSGANFDKLRSTV 133
+ V ++Q+ GA+ L +
Sbjct: 83 NKVRIDQYQGADAVGLEEKI 102
>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A
{Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A*
3sdv_A*
Length = 817
Score = 26.1 bits (56), Expect = 5.2
Identities = 11/61 (18%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 60 IGKGGDMIKKLQNETGARVQFVQMREDDPSDRRC-MLSGSPDQVQEARARIEELIDSVMV 118
+ + +I +L ++T + + R + S C M +EA I +++ +
Sbjct: 701 LTELNSLISRLADDTKTY-KAEKARGELASSIECYMKDHPECTEEEALDHIYSILEPAVK 759
Query: 119 E 119
E
Sbjct: 760 E 760
>4fk8_A Ferredoxin--NADP reductase; ssgcid, NIH, niaid, structural
genomics, national institute allergy and infectious
diseases; HET: FAD; 2.10A {Burkholderia thailandensis}
PDB: 4f7d_A*
Length = 271
Score = 25.9 bits (57), Expect = 5.4
Identities = 8/40 (20%), Positives = 16/40 (40%)
Query: 73 ETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEEL 112
+G + M P R ML GS +++ +++
Sbjct: 211 ASGKLFTDLDMPPFSPEQDRVMLCGSTAMLKDTTELLKKA 250
>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for
structural genomics, PSI, protein structure initiative,
MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28
Length = 145
Score = 25.4 bits (56), Expect = 5.7
Identities = 9/40 (22%), Positives = 18/40 (45%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R DP+DRR + +E ++ E ++ + + S
Sbjct: 79 RTPDPADRRAYFLVITRKGEEVIEKVIERRENFIEKITSD 118
>2uuu_A Alkyldihydroxyacetonephosphate synthase; transferase, lavoprotein,
lipid synthesis, peroxisomal disor; HET: FAD PL3; 1.95A
{Dictyostelium discoideum} PDB: 2uuv_A*
Length = 584
Score = 25.9 bits (57), Expect = 5.8
Identities = 4/64 (6%), Positives = 14/64 (21%), Gaps = 4/64 (6%)
Query: 53 KAAVGVVIGKGGDMIKKLQNETGARVQFVQMREDDPSDRRCML----SGSPDQVQEARAR 108
+ + + +++ C+ G V R
Sbjct: 353 PEETQLSFAWKPSKGAVSEFTSAMVKKYLHYIRSFDFKNVCLSIIGFEGPKKVVDFHRTS 412
Query: 109 IEEL 112
+ ++
Sbjct: 413 VFDI 416
>2aaa_A Alpha-amylase; glycosidase; 2.10A {Aspergillus niger} SCOP:
b.71.1.1 c.1.8.1
Length = 484
Score = 25.9 bits (57), Expect = 6.2
Identities = 5/28 (17%), Positives = 6/28 (21%)
Query: 86 DDPSDRRCMLSGSPDQVQEARARIEELI 113
P +R D E I
Sbjct: 339 KVPYNREATWLSGYDTSAELYTWIATTN 366
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix
motif, DNA-binding, transcription, transcription
regulation; 2.40A {Staphylococcus aureus}
Length = 139
Score = 25.4 bits (56), Expect = 6.4
Identities = 7/40 (17%), Positives = 10/40 (25%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R D D R G + + D + S
Sbjct: 79 RYVDAQDTRRKNIGLTTSGIKLVEAFTSIFDEMEQTLVSQ 118
>1z69_A COG2141, coenzyme F420-dependent N(5),N(10)-
methylenetetrahydromethanopterin reductase; (alpha,
beta)8 barrel, oxidoreductase; HET: F42 1PG; 2.61A
{Methanosarcina barkeri}
Length = 327
Score = 25.4 bits (56), Expect = 6.5
Identities = 7/76 (9%), Positives = 19/76 (25%), Gaps = 3/76 (3%)
Query: 61 GKGGDMIKKLQNETGARVQFVQMREDDPSD--RRCMLSGSPDQVQEA-RARIEELIDSVM 117
G + ++ M + G+PD + + + ++
Sbjct: 245 GIPVEAKSQIGAAIAKGDFGALMGGLVTPQMIEAFSICGTPDDCMKRIKDLEAIGVTQIV 304
Query: 118 VEQFSGANFDKLRSTV 133
G +K +
Sbjct: 305 AGSPIGPAKEKAIKLI 320
>3c8n_A Probable F420-dependent glucose-6-phosphate dehyd FGD1; TIM barrel,
non-prolyl CIS-peptide, oxidoreductase; 1.90A
{Mycobacterium tuberculosis} PDB: 3b4y_A
Length = 356
Score = 25.5 bits (56), Expect = 7.2
Identities = 3/36 (8%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 79 QFVQMREDDPSDRRCMLSGSPDQVQEARARIEELID 114
+ + +R +++ PD+ ++ + +
Sbjct: 290 KAADALPIEQIAKRWIVASDPDEA---VEKVGQYVT 322
>1wzl_A Alpha-amylase II; pullulan, GH-13, alpha-amylase family, hydrolase;
2.00A {Thermoactinomyces vulgaris} SCOP: b.1.18.2
b.71.1.1 c.1.8.1 PDB: 1ji2_A 1bvz_A 1vfk_A* 3a6o_A*
1wzm_A 1jf6_A 1wzk_A 2d2o_A* 1jib_A* 1jl8_A* 1vb9_A*
1g1y_A* 1vfo_A* 1vfm_A* 1vfu_A* 1jf5_A
Length = 585
Score = 25.4 bits (56), Expect = 7.6
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 85 EDDPSDRRCMLSGSPDQVQEARARIEELI 113
DP R M+ +Q + +ELI
Sbjct: 463 ATDPDCLRPMIWEEKEQNRGLFEFYKELI 491
>3m00_A Aristolochene synthase; plant terpenoid cyclase, lyase binding
domain, (2-CIS, 6-trans)-2-fluorofarnesyl diphospha
magnesium, metal-binding; HET: 2CF; 2.10A {Nicotiana
tabacum} PDB: 3lz9_A* 3m02_A* 3m01_A* 5eau_A* 1hxa_A*
1hx9_A* 1hxc_A* 5eas_A 1hxg_A 4di5_A* 5eat_A*
Length = 550
Score = 25.5 bits (55), Expect = 7.7
Identities = 5/39 (12%), Positives = 15/39 (38%)
Query: 79 QFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVM 117
+ + R + C + +EA A+ + + ++
Sbjct: 452 EVEKSRGQIATGIECCMRDYGISTKEAMAKFQNMAETAW 490
>1e2k_A Thymidine kinase; transferase, antiviral drug, enzyme-prodrug gene
therapy, sugar ring pucker; HET: TMC; 1.7A {Herpes
simplex virus} SCOP: c.37.1.1 PDB: 1e2i_A* 1e2h_A*
1e2m_A* 1e2n_A* 1e2p_A* 1ki2_A* 1ki3_A* 1ki4_A* 1ki6_B*
1ki7_A* 1ki8_A* 3rdp_A* 2ki5_A* 1kim_A* 1qhi_A* 1p7c_A*
1vtk_A* 2vtk_A* 3vtk_A* 3f0t_A* ...
Length = 331
Score = 25.5 bits (55), Expect = 7.9
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 4/58 (6%)
Query: 80 FVQMREDDPSDRRCMLSGSPDQVQE---ARARIEELIDSVMVEQFSGANFDKLRSTVL 134
+ P + + D+ + R R E +D M+ + L +TV
Sbjct: 146 VALIPPTLPGTNIVLGALPEDRHIDRLAKRQRPGERLDLAMLAAIRRV-YGLLANTVR 202
>1j0h_A Neopullulanase; beta-alpha-barrels, hydrolase; 1.90A {Geobacillus
stearothermophilus} SCOP: b.1.18.2 b.71.1.1 c.1.8.1 PDB:
1j0i_A* 1j0j_A* 1j0k_A* 1sma_A 1gvi_A*
Length = 588
Score = 25.4 bits (56), Expect = 8.0
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 85 EDDPSDRRCMLSGSPDQVQEARARIEELI 113
+DP R+CM+ Q +E +++LI
Sbjct: 466 GNDPECRKCMVWDPMQQNKELHQHVKQLI 494
>3cxg_A Putative thioredoxin; malaria, structural GEN oxidoreductase,
structural genomics consortium, SGC; 2.00A {Plasmodium
falciparum}
Length = 133
Score = 24.7 bits (54), Expect = 8.1
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 114 DSVMVEQFSGANFDKLRSTV 133
+ V+V GAN + +
Sbjct: 105 EWVLVHTVEGANQNDIEKAF 124
>3s2w_A Transcriptional regulator, MARR family; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 2.45A {Methanosarcina mazei}
Length = 159
Score = 25.0 bits (55), Expect = 8.8
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 6/58 (10%)
Query: 66 MIKKLQNETGARVQFVQMREDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
I+KL + G +V R+ D DRR ++ ++ ++++ FS
Sbjct: 84 AIQKLV-DEG----YVF-RQRDEKDRRSYRVFLTEKGKKLEPDMKKIASEWGEILFSS 135
>1c3c_A Protein (adenylosuccinate lyase); purine biosynthesis; 1.80A
{Thermotoga maritima} SCOP: a.127.1.1 PDB: 1c3u_A
Length = 429
Score = 25.3 bits (56), Expect = 9.2
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 100 DQVQEARARIEELIDSVMVEQFSGA 124
+++ R+E I+ V + SGA
Sbjct: 158 SEMKRNVQRLERAIEEVSYGKISGA 182
>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein,
structural genomics, PSI-2, protein structure
initiative; HET: MSE; 2.10A {Clostridium acetobutylicum}
Length = 148
Score = 24.6 bits (54), Expect = 9.3
Identities = 4/40 (10%), Positives = 8/40 (20%)
Query: 84 REDDPSDRRCMLSGSPDQVQEARARIEELIDSVMVEQFSG 123
R ++ R + + V G
Sbjct: 89 RRIPENNARQKNIYVLPKGAALVEEFNNIFLEVEESITKG 128
>4aee_A Alpha amylase, catalytic region; hydrolase, hyperthermostable,
cyclodextrin hydrolase, GH13; 2.28A {Staphylothermus
marinus}
Length = 696
Score = 25.1 bits (55), Expect = 9.6
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 86 DDPSDRRCMLSGSPDQVQEARARIEELI 113
DP +RR M+ + E I++LI
Sbjct: 578 RDPDNRRPMIWDRGNWDLELYEHIKKLI 605
>1xwb_A Thioredoxin; dimerization, redox regulation, THI X-RAY electron
transport; 2.20A {Drosophila melanogaster} SCOP:
c.47.1.1 PDB: 1xw9_A 1xwc_A 1xwa_A
Length = 106
Score = 24.2 bits (53), Expect = 10.0
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 118 VEQFSGANFDKLRSTVLAN 136
VE+F+GAN +L + AN
Sbjct: 87 VEEFAGANAKRLEDVIKAN 105
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
0.318 0.134 0.400
Gapped
Lambda K H
0.267 0.0645 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,190,878
Number of extensions: 126429
Number of successful extensions: 569
Number of sequences better than 10.0: 1
Number of HSP's gapped: 532
Number of HSP's successfully gapped: 140
Length of query: 138
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 54
Effective length of database: 4,356,429
Effective search space: 235247166
Effective search space used: 235247166
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 (21.7 bits)
S2: 52 (24.0 bits)