RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12968
(402 letters)
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA
binding; NMR {Xenopus laevis} SCOP: d.51.1.1
Length = 140
Score = 132 bits (333), Expect = 9e-38
Identities = 46/118 (38%), Positives = 76/118 (64%), Gaps = 4/118 (3%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
++ K+ VPVKE+P FNFVG++LGP+G + ++L+ ET K+ + GKGSMRD+ KEE+ R
Sbjct: 2 LQEKLYVPVKEYPDFNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNR-- 59
Query: 131 GDPKNAHLVEDLHVQVSALAPPAEAHARIAYALSELRKYII--PDVNDEIRQEQFREM 186
G P HL EDLHV ++ A ++ A+ E++K ++ + D +++ + E+
Sbjct: 60 GKPNWEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMEL 117
>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 = 123 bits (309), Expect = 2e-34
Identities = 35/128 (27%), Positives = 63/128 (49%), Gaps = 14/128 (10%)
Query: 67 KPILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEE 126
V KV++P E+P NFVG L+GP+GN+L+ +++E K+ I GKGS+++
Sbjct: 3 MATRVSDKVMIPQDEYPEINFVGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGR- 61
Query: 127 LRKEGDPKNAHLVEDLHVQVSALAPPAEAHARIAYALSELRKYI-----IPDVNDEIRQE 181
+ E LH V+ A + A+ ++R + P+ +++R+
Sbjct: 62 ---KDGQMLPGEDEPLHALVT-----ANTMENVKKAVEQIRNILKQGIETPEDQNDLRKM 113
Query: 182 QFREMGYV 189
Q RE+ +
Sbjct: 114 QLRELARL 121
>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 = 63.8 bits (155), Expect = 7e-13
Identities = 27/132 (20%), Positives = 46/132 (34%), Gaps = 29/132 (21%)
Query: 74 KVLVPVKE-HPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGD 132
K+ V ++ P FN K+ GP + L+ +Q ET K+ + GKGS
Sbjct: 15 KLFVGLEHAVPTFNVKEKVEGPGCSYLQHIQIETGAKVFLRGKGSGCIEPASGR------ 68
Query: 133 PKNAHLVEDLHVQVSALAPPAEAHARIAYALSELRKYIIPDVNDEIRQEQFREMGYVHHE 192
E +++ +S P A A K + ++ + E +
Sbjct: 69 ----EAFEPMYIYISHPKPEGLAAA----------KKLCENLLQTVHAE--------YSR 106
Query: 193 PRPQMRHPRPPP 204
Q+ P P
Sbjct: 107 FVNQINTAVPLP 118
>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 = 38.8 bits (91), Expect = 2e-04
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGD 132
V++ VP N VG +LG G +L QE T ++ I KG ++ + G
Sbjct: 5 VEMAVPE------NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGS 58
Query: 133 PKNAHLVEDL 142
P + L
Sbjct: 59 PAATQAAQYL 68
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens}
SCOP: d.51.1.1 PDB: 1vih_A
Length = 71
Score = 38.9 bits (91), Expect = 2e-04
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 70 LVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRK 129
+ V++ + K H L+G G ++ R++++ + I D K +R
Sbjct: 4 MDYVEINIDHKFH------RHLIGKSGANINRIKDQYKVSVRIP-----PDSEKSNLIRI 52
Query: 130 EGDPKNAHLVEDL 142
EGDP+ +
Sbjct: 53 EGDPQGVQQAKRE 65
>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 = 43.1 bits (101), Expect = 2e-04
Identities = 72/521 (13%), Positives = 142/521 (27%), Gaps = 193/521 (37%)
Query: 3 IERELEDGNDTKANEYVKTLLK--EKMTL-DSDSHSYTLKLLDDEINKAMASNK--KKY- 56
+ +E + ++ + L E L +D H+ KLL + + + + K Y
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 57 ------DSPYLD-----LFREKPILVKVKVLVPVKEHPRFNFVGKLLGPKGNS------L 99
P+ LFR + + + + G +GN+ L
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVG-----------EGNAQL-VA--IFGGQGNTDDYFEEL 173
Query: 100 RRLQE-------ETMTKMSILGKGSMRDRSKEEELRKEG--------DPKNAHLVEDL-H 143
R L + + + + +R E++ +G +P N + L
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 144 VQVS-------ALA-----------PPAEAHARIAYALSELRKYIIPDV-----NDEIRQ 180
+ +S LA P E + + + + ++ V +
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK-GATGHSQGLVTAVAIAETDSW--- 289
Query: 181 EQFRE-----------MGYVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHM 229
E F +G +E P + PP ++ P M
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYP---NTSLPPSILEDSLENN--------EGVPSPM 338
Query: 230 --VR--------------PPHPPP-------------------PPAASRG--------KV 246
+ H P PP + G K
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA 398
Query: 247 LSILDRARAAMEKPAPSAGVYEYEDPHAA--HAYYETTA-------------SYDPA--- 288
S LD++R + + P A+ H++ A S++
Sbjct: 399 PSGLDQSRIPFSERKL-KFSNRF-LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 289 --MYDPYASTAGDYYDTSASYYETAAPA----PLPSTSSRTGGSGWKSSSGYAEHH---- 338
+YD + D S S E P+ W++++ + H
Sbjct: 457 IPVYDTF--DGSDLRVLSGSISERIVDCIIRLPV----------KWETTTQFKATHILDF 504
Query: 339 ----SSSRSKSSAPIRSSSSEKVVNASLVGLQGAQSTEYGY 375
+S + + + +V+ A L +YG+
Sbjct: 505 GPGGASGLGVLTHRNKDGTGVRVIVAGT--LDINPDDDYGF 543
Score = 41.6 bits (97), Expect = 5e-04
Identities = 46/293 (15%), Positives = 73/293 (24%), Gaps = 100/293 (34%)
Query: 144 VQVSALAPPAEAHARIAYALSELRKY---IIPDVNDEIRQE-----------QFREMGYV 189
++ L P A + S+L++ I+P+ + + +F +GYV
Sbjct: 16 LEHVLLVPTA-----SFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF--LGYV 68
Query: 190 HHEPRPQMRHPRPP------------------PHMVAAR-PAPGLLAPPRMQH------A 224
P H +AA+ + +
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 225 APPHMVRPPHPPPPPAASRGKVLSILDRARAAMEKPAPSAGVY-------EYEDPHAAHA 277
A RP A L RA +A + +D
Sbjct: 129 ARIMAKRPFDKKSNSA---------L--FRAV---GEGNAQLVAIFGGQGNTDD------ 168
Query: 278 YYETTASYDPAMYDPYASTAGDYYDTSASYYETAAPAPLPSTSSRTGG---SGWKSSSGY 334
Y+E +Y Y GD SA L + T G W
Sbjct: 169 YFEELRD----LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW------ 218
Query: 335 AEHHSSSRSKS---SAPIRSSSSEKVVNASLVGLQGAQSTEYGYEDRKRRLDP 384
E+ S++ K S PI S + Q Y + P
Sbjct: 219 LENPSNTPDKDYLLSIPI-----------SCPLIGVIQLAHYVVTAKLLGFTP 260
Score = 30.0 bits (67), Expect = 1.6
Identities = 20/94 (21%), Positives = 32/94 (34%), Gaps = 29/94 (30%)
Query: 125 EELRKEG-DPKNA----H-LVEDLHVQVSALAPPAEAHARIAYALSELRKYIIPDVNDEI 178
E+L+ +G P +A H L E +ALA A+ +S + +
Sbjct: 1745 EDLKSKGLIPADATFAGHSLGE-----YAALASLAD-------VMS---------IESLV 1783
Query: 179 RQEQFREMGYVHHEPRPQMRHPRPPPHMVAARPA 212
+R G P+ R M+A P
Sbjct: 1784 EVVFYR--GMTMQVAVPRDELGRSNYGMIAINPG 1815
>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 = 40.5 bits (95), Expect = 2e-04
Identities = 11/67 (16%), Positives = 23/67 (34%), Gaps = 9/67 (13%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
+ V VP + VG ++G G ++++Q + ++ E+
Sbjct: 91 GGIDVPVP------RHSVGVVIGRSGEMIKKIQNDAGVRIQFK---QDDGTGPEKIAHIM 141
Query: 131 GDPKNAH 137
G P
Sbjct: 142 GPPDRCE 148
Score = 39.0 bits (91), Expect = 8e-04
Identities = 16/69 (23%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 74 KVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGDP 133
++++P + G ++G G ++++LQE KM ++ GS ++ LR GDP
Sbjct: 5 EIMIPAGK------AGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNV-DKPLRIIGDP 57
Query: 134 KNAHLVEDL 142
++
Sbjct: 58 YKVQQACEM 66
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo
sapiens}
Length = 85
Score = 38.5 bits (90), Expect = 3e-04
Identities = 16/72 (22%), Positives = 35/72 (48%), Gaps = 7/72 (9%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
++++P G ++G G ++++LQE KM ++ GS ++ + ++ LR
Sbjct: 14 TVQEIMIPA------GKAGLVIGKGGETIKQLQERAGVKMILIQDGS-QNTNVDKPLRII 66
Query: 131 GDPKNAHLVEDL 142
GDP ++
Sbjct: 67 GDPYKVQQACEM 78
>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 = 38.6 bits (90), Expect = 3e-04
Identities = 15/70 (21%), Positives = 35/70 (50%), Gaps = 7/70 (10%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGD 132
++++P + G ++G G ++++LQE KM ++ G ++ ++ LR GD
Sbjct: 17 QEIMIPA------SKAGLVIGKGGETIKQLQERAGVKMVMIQDGP-QNTGADKPLRITGD 69
Query: 133 PKNAHLVEDL 142
P +++
Sbjct: 70 PYKVQQAKEM 79
>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 = 37.7 bits (88), Expect = 5e-04
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGD 132
V++ VP N VG +LG G +L QE T ++ I KG ++ + G
Sbjct: 5 VEIAVPE------NLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGS 58
Query: 133 PKNAHLVEDL 142
P + L
Sbjct: 59 PAATQAAQYL 68
>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 = 37.6 bits (87), Expect = 6e-04
Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 12/65 (18%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
++V VP + VG ++GPKG +++R+Q+ T T + R KE
Sbjct: 10 TTIQVRVP------YRVVGLVVGPKGATIKRIQQRTHTYIVT------PGRDKEPVFAVT 57
Query: 131 GDPKN 135
G P+N
Sbjct: 58 GMPEN 62
>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 = 37.3 bits (87), Expect = 7e-04
Identities = 14/51 (27%), Positives = 33/51 (64%), Gaps = 7/51 (13%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDR 121
+ +++L+ KE VG ++G KG S+++++EE+ +++I +G+ +R
Sbjct: 5 LTIRLLMHGKE------VGSIIGKKGESVKKMREESGARINI-SEGNCPER 48
>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 = 36.6 bits (85), Expect = 0.001
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 6/47 (12%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGS 117
V +P + H ++G G L+ L+ +T TK+ I
Sbjct: 17 ASATVAIPKEHH------RFVIGKNGEKLQDLELKTATKIQIPRPDD 57
>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 = 36.3 bits (84), Expect = 0.002
Identities = 15/72 (20%), Positives = 27/72 (37%), Gaps = 8/72 (11%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
K+ V V K H K++G KG + +++ E + K ++++
Sbjct: 17 FKLSVTVDPKYH------PKIIGRKGAVITQIRLEHDVNIQFPDKD--DGNQPQDQITIT 68
Query: 131 GDPKNAHLVEDL 142
G KN D
Sbjct: 69 GYEKNTEAARDA 80
>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 = 37.5 bits (87), Expect = 0.003
Identities = 11/67 (16%), Positives = 29/67 (43%), Gaps = 7/67 (10%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKE 130
+VK++VP + G ++G G +++ + E++ + + K + +
Sbjct: 104 NQVKIIVPN------STAGLIIGKGGATVKAIMEQSGAWVQLSQKP-DGINLQNRVVTVS 156
Query: 131 GDPKNAH 137
G+P+
Sbjct: 157 GEPEQNR 163
Score = 36.4 bits (84), Expect = 0.006
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 6/54 (11%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKE 124
+KVL+P G ++G G ++ +LQ+ET + + + E
Sbjct: 6 YFLKVLIPSYA------AGSIIGKGGQTIVQLQKETGATIKLSKSKDFYPGTTE 53
>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 = 36.7 bits (85), Expect = 0.004
Identities = 13/46 (28%), Positives = 30/46 (65%), Gaps = 6/46 (13%)
Query: 67 KPILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
K + + +++L+ KE VG ++G KG S+++++EE+ +++I
Sbjct: 1 KNVTLTIRLLMHGKE------VGSIIGKKGESVKKMREESGARINI 40
>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 = 36.4 bits (84), Expect = 0.007
Identities = 8/70 (11%), Positives = 24/70 (34%), Gaps = 6/70 (8%)
Query: 68 PILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEEL 127
L + +VP G ++G G +++ + +++ ++ + +
Sbjct: 101 GGLQEFNFIVPT------GKTGLIIGKGGETIKSISQQSGARIELQRNPPPNADPNMKLF 154
Query: 128 RKEGDPKNAH 137
G P+
Sbjct: 155 TIRGTPQQID 164
Score = 36.0 bits (83), Expect = 0.009
Identities = 7/40 (17%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
+ V +P VG ++G G ++++Q + ++
Sbjct: 5 IDVPIPR------FAVGIVIGRNGEMIKKIQNDAGVRIQF 38
>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 = 35.9 bits (83), Expect = 0.008
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 6/40 (15%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
V+V +P + VG ++G KG +++L + I
Sbjct: 5 VQVFIPAQA------VGAIIGKKGQHIKQLSRFASASIKI 38
>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 = 33.6 bits (77), Expect = 0.021
Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRD 120
V ++V VP H ++G KG+ +R++ +E + + D
Sbjct: 17 VTIEVEVPFDLH------RYVIGQKGSGIRKMMDEFEVNIHVPAPELQSD 60
>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 = 33.2 bits (76), Expect = 0.027
Identities = 9/57 (15%), Positives = 24/57 (42%), Gaps = 6/57 (10%)
Query: 61 LDLFREKPILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSILGKGS 117
+ E +V V + + H +++G +G ++R++ +E + G+
Sbjct: 7 GRIVGELEQMVSEDVPLDHRVH------ARIIGARGKAIRKIMDEFKVDIRFPQSGA 57
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 33.1 bits (75), Expect = 0.11
Identities = 16/57 (28%), Positives = 17/57 (29%), Gaps = 6/57 (10%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRM------QHAAPPHMVRPPHPPPPPAASR 243
P R PPP A P + PP M PP P PPP
Sbjct: 167 QYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRPP 223
Score = 32.7 bits (74), Expect = 0.15
Identities = 8/47 (17%), Positives = 11/47 (23%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPP 239
P PQ P P+ ++ P A P
Sbjct: 119 PMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAP 165
Score = 32.7 bits (74), Expect = 0.15
Identities = 12/47 (25%), Positives = 13/47 (27%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPP 239
P P P P P PP +RPP PP
Sbjct: 158 TASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMG 204
Score = 32.3 bits (73), Expect = 0.23
Identities = 11/52 (21%), Positives = 11/52 (21%), Gaps = 2/52 (3%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P R P P P M PP PP G
Sbjct: 155 AAATASIAGAPTQYPPGRGGPP--PPMGRGAPPPGMMGPPPGMRPPMGPPMG 204
Score = 31.9 bits (72), Expect = 0.24
Identities = 10/47 (21%), Positives = 11/47 (23%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPP 239
PQ R A G PP + PPP
Sbjct: 142 MTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGM 188
Score = 31.9 bits (72), Expect = 0.29
Identities = 12/50 (24%), Positives = 14/50 (28%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAAS 242
P G PP + A PP M+ PP PP
Sbjct: 152 AAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGP 201
Score = 31.2 bits (70), Expect = 0.51
Identities = 8/45 (17%), Positives = 13/45 (28%)
Query: 200 PRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P + + GL P R ++ P AA+
Sbjct: 112 RGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAA 156
Score = 31.2 bits (70), Expect = 0.54
Identities = 15/52 (28%), Positives = 16/52 (30%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
+ PP P G APP PP M P PP RG
Sbjct: 159 ASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRG 210
Score = 30.4 bits (68), Expect = 0.79
Identities = 9/52 (17%), Positives = 12/52 (23%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P Q+ P+ + AA A P PP
Sbjct: 137 PSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGM 188
Score = 30.4 bits (68), Expect = 0.84
Identities = 10/52 (19%), Positives = 11/52 (21%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P PP M APP + P P P
Sbjct: 151 AAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPP 202
Score = 30.0 bits (67), Expect = 1.2
Identities = 8/48 (16%), Positives = 11/48 (22%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPA 240
P+ + A+ PP PP P P
Sbjct: 144 PQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGP 191
Score = 29.2 bits (65), Expect = 2.2
Identities = 6/49 (12%), Positives = 7/49 (14%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAA 241
+A P P PPP
Sbjct: 147 RGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGM 195
Score = 28.5 bits (63), Expect = 3.8
Identities = 14/52 (26%), Positives = 15/52 (28%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P R P V AP LA P P V P AA+
Sbjct: 104 PGIGRAAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAA 155
Score = 27.3 bits (60), Expect = 7.9
Identities = 16/52 (30%), Positives = 17/52 (32%), Gaps = 4/52 (7%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
P PPP M P + P R P PP PPP RG
Sbjct: 182 GAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMP----PPGMRPPPPGMRG 229
>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 = 31.1 bits (71), Expect = 0.12
Identities = 7/42 (16%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
+ +V +P + G ++G G +++++ E+ + I
Sbjct: 14 ITTQVTIPK------DLAGSIIGKGGQRIKQIRHESGASIKI 49
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane
protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP:
c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 33.3 bits (75), Expect = 0.13
Identities = 13/86 (15%), Positives = 23/86 (26%), Gaps = 1/86 (1%)
Query: 192 EPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILD 251
++ P+PPP + +PG A P P P+
Sbjct: 21 GYMTDLQRPQPPPPP-PSAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGGFFS 79
Query: 252 RARAAMEKPAPSAGVYEYEDPHAAHA 277
A+++ +A E
Sbjct: 80 SLSNAVKQTTAAAAATFSEQVGGGSG 105
>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 = 30.5 bits (69), Expect = 0.22
Identities = 12/35 (34%), Positives = 18/35 (51%), Gaps = 6/35 (17%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEE 105
+V+V +P K H L+G KG +R + EE
Sbjct: 17 AEVEVSIPAKLH------NSLIGTKGRLIRSIMEE 45
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA
binding protein; NMR {Homo sapiens}
Length = 106
Score = 30.9 bits (70), Expect = 0.22
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 72 KVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
+ V VP + VG ++G G ++++Q + ++
Sbjct: 12 GIDVPVPR------HSVGVVIGRSGEMIKKIQNDAGVRIQF 46
>3k6t_A Female germline-specific tumor suppressor GLD-1; QUA1
homodimerization domain, helix-turn-helix motif,
hydrophobic homodimer interface; 2.04A {Caenorhabditis
elegans} PDB: 3kbl_A
Length = 60
Score = 29.6 bits (66), Expect = 0.24
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 10 GNDTKANEYVKTLLKEKMTLDSDSHSYT--LKLLDDEINK 47
G+ EY+ L+KEK L H ++ +LLDDEI +
Sbjct: 1 GSHEATVEYLADLVKEKKHLTLFPHMFSNVERLLDDEIGR 40
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr
kinase, pseudokinase, FHA domain, REG phosphorylation;
HET: TPO; 2.71A {Mycobacterium tuberculosis}
Length = 157
Score = 31.4 bits (71), Expect = 0.25
Identities = 10/64 (15%), Positives = 16/64 (25%)
Query: 194 RPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILDRA 253
+ H + P G A P + P + P P G A
Sbjct: 5 QHHHHHSSGLVPRGSHMPQGGGYAEPAGRDYDYGQSGAPDYGQPAPGGYSGYGQGGYGSA 64
Query: 254 RAAM 257
++
Sbjct: 65 GTSV 68
Score = 27.2 bits (60), Expect = 7.0
Identities = 11/76 (14%), Positives = 17/76 (22%), Gaps = 1/76 (1%)
Query: 203 PPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILDRARAAMEKPAP 262
H ++ P P+ A P R A G+ +
Sbjct: 6 HHHHHSSGLVPRGSHMPQGGGYAEP-AGRDYDYGQSGAPDYGQPAPGGYSGYGQGGYGSA 64
Query: 263 SAGVYEYEDPHAAHAY 278
V D + Y
Sbjct: 65 GTSVTLQLDDGSGRTY 80
Score = 26.8 bits (59), Expect = 9.1
Identities = 4/49 (8%), Positives = 8/49 (16%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAA 241
PQ P G + + + +
Sbjct: 20 HMPQGGGYAEPAGRDYDYGQSGAPDYGQPAPGGYSGYGQGGYGSAGTSV 68
>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 = 29.9 bits (68), Expect = 0.27
Identities = 6/40 (15%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 73 VKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
++ +P N +G ++G +G ++ +++ + ++ I
Sbjct: 8 HELTIPN------NLIGCIIGRQGANINEIRQMSGAQIKI 41
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 32.1 bits (72), Expect = 0.39
Identities = 12/55 (21%), Positives = 16/55 (29%)
Query: 190 HHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
HH+ R + P PP+ AA + PP S G
Sbjct: 3 HHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMG 57
Score = 31.3 bits (70), Expect = 0.73
Identities = 5/52 (9%), Positives = 9/52 (17%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
+ Q P A + + + P P
Sbjct: 57 GQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTP 108
Score = 30.6 bits (68), Expect = 1.00
Identities = 7/50 (14%), Positives = 10/50 (20%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAAS 242
PQ + P G + Q P + S
Sbjct: 30 MPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTS 79
Score = 30.6 bits (68), Expect = 1.1
Identities = 13/80 (16%), Positives = 22/80 (27%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILDR 252
Q + P + + + M P + + P G L +
Sbjct: 55 SMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQ 114
Query: 253 ARAAMEKPAPSAGVYEYEDP 272
AA PSA + + P
Sbjct: 115 PMAAPAYGQPSAAMGQNMRP 134
Score = 30.6 bits (68), Expect = 1.2
Identities = 8/49 (16%), Positives = 8/49 (16%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAA 241
Q P P P Q PP P
Sbjct: 15 QYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLT 63
Score = 30.2 bits (67), Expect = 1.5
Identities = 3/48 (6%), Positives = 5/48 (10%)
Query: 195 PQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAAS 242
PP P + +
Sbjct: 40 MSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHN 87
Score = 28.6 bits (63), Expect = 4.1
Identities = 9/49 (18%), Positives = 12/49 (24%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAA 241
P Q PP AA + G + P + P
Sbjct: 22 PLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLH 70
>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 = 29.7 bits (67), Expect = 0.46
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 71 VKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRLQEETMTKMSI 112
+ + VP VG ++G G + R+Q+E+ K+ I
Sbjct: 15 MTEEYKVPD------GMVGFIIGRGGEQISRIQQESGCKIQI 50
>3b0g_A NII3, nitrite reductase; siroheme, Fe4S4 binding protein,
oxidoreductase; HET: SRM; 1.25A {Nicotiana tabacum} PDB:
3vkp_A* 3vkq_A* 3vkr_A* 3vks_A* 3vkt_A* 3b0n_A* 3b0m_A*
3b0j_A* 3b0l_A* 3b0h_A*
Length = 591
Score = 30.0 bits (68), Expect = 1.7
Identities = 11/59 (18%), Positives = 15/59 (25%)
Query: 186 MGYVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRG 244
MG+ HH + ++ A L A P A P P
Sbjct: 1 MGHHHHHHHHHHSSGHIEGRHMFSKNAVKLHATPPSVAAPPTGAPEVAAERLEPRVEEK 59
>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP;
2.31A {Aquifex aeolicus}
Length = 546
Score = 29.5 bits (66), Expect = 2.1
Identities = 22/121 (18%), Positives = 35/121 (28%), Gaps = 5/121 (4%)
Query: 173 DVNDEIRQEQFREMGYVHHEPRPQMRHPRPPPHMVAARPAPGLL-APPRMQHAAPPHMVR 231
DV+ R ++ + Y + + + P M A P L R + A +V
Sbjct: 207 DVDVYTRMRIYKVL-YEKYYDKKKTILAFLPLAMRMAGPREALWHGIIRRNYGATHFIVG 265
Query: 232 PPHPPPPPAASRGKVLSILDRARAAMEKPAPSAGVYEYEDPHAAHAYYETTASYDPAMYD 291
H P S+GK A+ +K G+ Y Y
Sbjct: 266 RDHASPGK-DSKGKPFYDPYEAQELFKKYEDEIGIKMVPFEEL--VYVPELDQYVEINEA 322
Query: 292 P 292
Sbjct: 323 K 323
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 29.3 bits (65), Expect = 2.3
Identities = 19/80 (23%), Positives = 22/80 (27%), Gaps = 4/80 (5%)
Query: 186 MGYVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGK 245
MG HH HMV + A + PP V P PPPPPA + G
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGN 60
Query: 246 VLSILDRARAAMEKPAPSAG 265
Sbjct: 61 ----PPDTVTGDSVLQRILR 76
Score = 28.6 bits (63), Expect = 3.7
Identities = 7/38 (18%), Positives = 7/38 (18%)
Query: 201 RPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPP 238
P A P P A V P
Sbjct: 41 PPVTVPDPAPPPPPAPAAGNPPDTVTGDSVLQRILRGP 78
>3c6a_A Terminase large subunit; terminase nuclease, viral protein; 1.16A
{Enterobacteria phage RB49} PDB: 3c6h_A
Length = 232
Score = 28.8 bits (63), Expect = 2.6
Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 3/55 (5%)
Query: 258 EKPAPSAGVYEYEDPHAAHAYYETTASYDPAMYDPYASTAGDYYDTSASYYETAA 312
G Y++E P Y A+ D + A D + Y+ A
Sbjct: 41 IDVVNDNGFYQFEKPKEGRKYV---ATLDCSEGRGQDYHALQIIDITEFPYKQVA 92
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 28.8 bits (64), Expect = 2.9
Identities = 5/49 (10%), Positives = 10/49 (20%)
Query: 194 RPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAAS 242
+ PP + G ++ P P +
Sbjct: 53 TSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYM 101
>2q8g_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; GHKL
ATPase/kinase family, pyruvate dehydrogenase complex,
mitochondrial kinase; HET: AZX; 1.90A {Homo sapiens}
PDB: 2q8f_A* 2q8h_A
Length = 407
Score = 29.0 bits (64), Expect = 3.0
Identities = 16/104 (15%), Positives = 36/104 (34%), Gaps = 8/104 (7%)
Query: 106 TMTKMSILGKGSMRDRSKEEELRKEGDPKNAHLVEDLHV---QVSALAPPAEAHARIAYA 162
+M + G + +++ LR+E + A++++++ + + + +
Sbjct: 29 SMKQFLDFGSVNACEKTSFMFLRQELPVRLANIMKEISLLPDNLLRTPSVQLVQSWYIQS 88
Query: 163 LSELRKYIIPDVNDEIRQEQFREMGYVHHEPRPQMRHPRPPPHM 206
L EL + D F + V RH P M
Sbjct: 89 LQELLDFKDKSAEDAKAIYDFTDT--VIRIRN---RHNDVIPTM 127
>1ued_A P450 OXYC, P450 monooxygenase; cytochrome P450 vancomycin
biosynthesis, oxidoreductase; HET: HEM PG4; 1.90A
{Amycolatopsis orientalis} SCOP: a.104.1.1
Length = 406
Score = 28.8 bits (65), Expect = 3.1
Identities = 7/53 (13%), Positives = 13/53 (24%), Gaps = 3/53 (5%)
Query: 186 MGYVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPP 238
MG+ + P +R P P ++ P +
Sbjct: 1 MGHDIDQVAPLLREPANFQLRTNCDPHEDNF---GLRAHGPLVRIVGESSTQL 50
>4af8_A Metacaspase MCA2; hydrolase, cysteine peptidase, caspase/hemoglobin
fold; 1.40A {Trypanosoma brucei} PDB: 4afp_A 4afv_A
4afr_A
Length = 367
Score = 28.8 bits (63), Expect = 3.2
Identities = 9/62 (14%), Positives = 14/62 (22%)
Query: 188 YVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVL 247
YV + + +P P + A P P + L
Sbjct: 37 YVGLGWLNAVSSQPYLVQALGLQPPPRRVDVDAAFRDAKGLHGHQPWVATPLPGQTVRAL 96
Query: 248 SI 249
I
Sbjct: 97 FI 98
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 3.2
Identities = 14/63 (22%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 98 SLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGDPKNAHLVEDLHVQVSALAPPAEAHA 157
S+R+ +EE ++ L S + E+E R++ +E+ + + S + +
Sbjct: 86 SIRKWREEQRKRLQELDAAS---KVMEQEWREKAKKD----LEEWNQRQSEQVEKNKINN 138
Query: 158 RIA 160
RIA
Sbjct: 139 RIA 141
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 28.7 bits (64), Expect = 3.5
Identities = 16/49 (32%), Positives = 19/49 (38%), Gaps = 6/49 (12%)
Query: 191 HEPRPQMRHPR-PPPHMVAA--RPAPGLLAPPRMQHAAPPHMVRPPHPP 236
+ P PQ P+ PP P G PP+ APP P PP
Sbjct: 393 YAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPPQ---GAPPQGAPPAAPP 438
Score = 28.4 bits (63), Expect = 5.6
Identities = 12/47 (25%), Positives = 15/47 (31%), Gaps = 4/47 (8%)
Query: 194 RPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPA 240
+ M + AA P G PP+ P PP PP
Sbjct: 372 KEMMAMMQKMQQQQAAYPPQGYAPPPQ----GYPPQGYPPQGYPPQG 414
>2pq0_A Hypothetical conserved protein GK1056; hyopthetical protein,
structural genomics, unknown function; 2.60A
{Geobacillus kaustophilus} PDB: 2qyh_A
Length = 258
Score = 28.2 bits (64), Expect = 4.4
Identities = 14/107 (13%), Positives = 35/107 (32%), Gaps = 22/107 (20%)
Query: 8 EDGNDTKANEYVKTLLKEKMTLDSDSHSYTLKLLDDEINKAMASNKKKYDSPYLDLFREK 67
G+ + + +L +D + + +I +A+ + + + PY+ + E
Sbjct: 112 SIGDHPHIHVSMASLKFAHPPVDPLYY------ENKDIYQALLFCRAEEEEPYVRNYPE- 164
Query: 68 PILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRL-------QEETM 107
V+ H V G K +R + +++
Sbjct: 165 --------FRFVRWHDVSTDVLPAGGSKAEGIRMMIEKLGIDKKDVY 203
>3sjs_A URE3-BP sequence specific DNA binding protein; EF-hand, structural
genomics, seattle S genomics center for infectious
disease, ssgcid; 1.90A {Entamoeba histolytica} PDB:
3sia_A 3sib_A
Length = 220
Score = 28.2 bits (63), Expect = 4.6
Identities = 7/46 (15%), Positives = 12/46 (26%)
Query: 197 MRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAAS 242
M+ P + +P G + PP + P
Sbjct: 1 MQPPVANFCLWNLQPIQGSWMGAACIYQMPPSVRNTWWFPLLNTIP 46
>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 = 27.3 bits (60), Expect = 5.5
Identities = 8/76 (10%), Positives = 25/76 (32%), Gaps = 9/76 (11%)
Query: 86 NFVGKLLGPKGNSLRRLQEETMTKMSILGKGSMRDRSKEEELRKEGDPKNA--HLVEDLH 143
+ +G +G G ++++ ++ L + + G+ ++A L
Sbjct: 13 DLMGLAIGTHGANIQQARKVPGVTAIDLDEDTCT-------FHIYGEDQDAVKKARSFLE 65
Query: 144 VQVSALAPPAEAHARI 159
+ P ++
Sbjct: 66 FAEDVIQVPRNLVGKV 81
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide
repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A
{Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3
b.26.1.2 PDB: 2fez_A*
Length = 388
Score = 28.1 bits (63), Expect = 5.6
Identities = 9/56 (16%), Positives = 14/56 (25%), Gaps = 4/56 (7%)
Query: 210 RPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILDRARAAMEKPAPSAG 265
R P AA AS + ++ L + P +A
Sbjct: 256 RQQPLDAKKSAKTTAAGT----VTVLDQRTMASGQQAVAYLHDIASGRGYPLQAAA 307
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 28.1 bits (62), Expect = 6.3
Identities = 14/139 (10%), Positives = 28/139 (20%)
Query: 178 IRQEQFREMGYVHHEPRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPP 237
+ + Q+ P + AP L +P + P
Sbjct: 1 MAHHHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLS 60
Query: 238 PPAASRGKVLSILDRARAAMEKPAPSAGVYEYEDPHAAHAYYETTASYDPAMYDPYASTA 297
P G S++ P+ + + S + P
Sbjct: 61 SPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKPPLGLNG 120
Query: 298 GDYYDTSASYYETAAPAPL 316
S + +
Sbjct: 121 VLKVPAHPSGNMASFTKHI 139
>3rsc_A CALG2; TDP, enediyne, structural genomics, PSI-2, protein structure
initiative, center for eukaryotic structural genomics;
HET: TYD C0T; 2.19A {Micromonospora echinospora} PDB:
3iaa_A*
Length = 415
Score = 28.1 bits (63), Expect = 6.3
Identities = 12/96 (12%), Positives = 21/96 (21%), Gaps = 2/96 (2%)
Query: 146 VSALAPPAEAHARIAYALSELRKYIIPDVNDEIRQEQFREMGYVHHEPRPQMRHPRPPPH 205
+ A + H + + L I P R + R++ H R +
Sbjct: 145 RLSAAFASNEHYSFSQDMVTLAGTIDPLDLPVFR-DTLRDLLAEHGLSRSVVDCWNHVEQ 203
Query: 206 MVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAA 241
+ P V P
Sbjct: 204 LNLV-FVPKAFQIAGDTFDDRFVFVGPCFDDRRFLG 238
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown
function; 2.10A {Bifidobacterium adolescentis atcc
1570ORGANISM_TAXID}
Length = 440
Score = 27.9 bits (62), Expect = 6.5
Identities = 21/110 (19%), Positives = 35/110 (31%), Gaps = 8/110 (7%)
Query: 163 LSELRKYIIPDVNDEIRQEQFREMGYVHHEPRPQMRHPRPPPHMVA---ARPAPGLLAPP 219
++ R I +N+ +R E + P R +P A P P
Sbjct: 275 AAQFRS--IRSINERVRIHTDSEQDKMFERYAPIQRKIKPSMWKNIIQDALALPPSEWPD 332
Query: 220 RMQHAAPPHMVRPPHPPPPPAASRGK---VLSILDRARAAMEKPAPSAGV 266
AA H + P + + L +L+R R A+ + A
Sbjct: 333 VDGGAARRHESQSASAPKSIRVWKERYPERLQVLNRVRKAVSQIAEDTRT 382
>4f6o_A Metacaspase-1; rossmann fold, hydrolase; HET: DFH; 1.68A
{Saccharomyces cerevisiae}
Length = 350
Score = 27.6 bits (60), Expect = 7.0
Identities = 8/57 (14%), Positives = 19/57 (33%), Gaps = 2/57 (3%)
Query: 196 QMRHPRPPPHMVAARPAPGLLAPPRMQHAAPP--HMVRPPHPPPPPAASRGKVLSIL 250
Q + + A + PP+ PP ++ P + G+ +++
Sbjct: 2 QAKAQLSNGYNNPNVNASNMYGPPQNMSLPPPQTQTIQGTDQPYQYSQCTGRRKALI 58
>3zss_A Putative glucanohydrolase PEP1A; alpha-glucan biosynthesis,
glycoside hydrolase FA; 1.80A {Streptomyces coelicolor}
PDB: 3zst_A* 3zt5_A* 3zt6_A* 3zt7_A*
Length = 695
Score = 28.0 bits (62), Expect = 7.3
Identities = 18/90 (20%), Positives = 30/90 (33%), Gaps = 12/90 (13%)
Query: 136 AHLVEDLHVQVSALAPPAEAHARIAYALSELRKYIIPDVNDEIRQEQFREMGYVHHEPRP 195
A L E + +A P E + A+ LR DE R R + +
Sbjct: 156 ARLYE----RAAADVPGREDRRELLAAVDALR--------DESRPAASRLAAALTPQVDA 203
Query: 196 QMRHPRPPPHMVAARPAPGLLAPPRMQHAA 225
+ + ++ P P L+ R + A
Sbjct: 204 VLARHPLRDLVTSSDPLPLLVERERALYGA 233
>3ioy_A Short-chain dehydrogenase/reductase SDR; structural genomics,
oxidoreductase, PSI-2, protein structure initiative;
1.90A {Novosphingobium aromaticivorans DSM12444}
Length = 319
Score = 27.4 bits (61), Expect = 8.2
Identities = 22/105 (20%), Positives = 36/105 (34%), Gaps = 12/105 (11%)
Query: 121 RSKEEELRKEGDPKNAHLVEDLHVQVSALAPPAEAHARIAYALSELRKYII--PDVNDEI 178
+ + L+ E P + VE L P AR+ A+ R +I PD +E+
Sbjct: 207 DIRPDALKGEVKPVDKTAVERLAGVHEFGMEPDVIGARVIEAMKANRLHIFSHPDHKEEL 266
Query: 179 R----------QEQFREMGYVHHEPRPQMRHPRPPPHMVAARPAP 213
R Q+ ++ GY + R +R A
Sbjct: 267 REVFDEIIAEYQDYPKDPGYDQRVAFEKFRADSFAEARRQSRAAD 311
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 27.3 bits (60), Expect = 8.3
Identities = 9/64 (14%), Positives = 12/64 (18%), Gaps = 11/64 (17%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGL-----------LAPPRMQHAAPPHMVRPPHPPPPPAA 241
RP P A P L +Q + PP
Sbjct: 14 WRPAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPK 73
Query: 242 SRGK 245
+
Sbjct: 74 PKKT 77
>2xqy_A GH, envelope glycoprotein H; immune system-viral protein complex,
envelope protein; HET: NAG; 2.05A {Suid herpesvirus}
Length = 572
Score = 27.5 bits (60), Expect = 8.9
Identities = 17/66 (25%), Positives = 29/66 (43%), Gaps = 1/66 (1%)
Query: 206 MVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPAASRGKVLSILDRARAAMEKPAPSAG 265
+ + P +++ RM+ APP + PP PP A R V ++ + AM +
Sbjct: 72 LRSFLPLEVIISAERMRMIAPPALGSDLEPPGPP-AGRFHVYTLGFLSDGAMHQTMRDVA 130
Query: 266 VYEYED 271
Y +E
Sbjct: 131 AYVHES 136
>3fzq_A Putative hydrolase; YP_001086940.1, putative haloacid
dehalogenase-like hydrolas structural genomics, joint
center for structural genomics; HET: MSE; 2.10A
{Clostridium difficile}
Length = 274
Score = 27.2 bits (61), Expect = 8.9
Identities = 19/109 (17%), Positives = 45/109 (41%), Gaps = 17/109 (15%)
Query: 6 ELEDGNDTKANEYVKTLLKEKMTLDSDSHSYTLKLLDDEINKAMASNKKKYDSPYLDLFR 65
E + + K ++EK+T +++ Y +I+K + +K D+ +
Sbjct: 122 ETMNQLKGTNSCINKQHIQEKITYENNIEEY----KSQDIHKICLWSNEKVFDEVKDILQ 177
Query: 66 EKPILVKVKVLVPVKEHPRFNFVGKLLGPKGNSLRRL-------QEETM 107
+K L + + ++ + + KG +++RL Q+ET+
Sbjct: 178 DKMELAQRDI------SSQYYEIIQKDFHKGKAIKRLQERLGVTQKETI 220
>2iya_A OLEI, oleandomycin glycosyltransferase; carbohydrate,
glycosylation, enzyme, macrolide; HET: UDP ZIO; 1.7A
{Streptomyces antibioticus}
Length = 424
Score = 27.4 bits (61), Expect = 9.3
Identities = 12/114 (10%), Positives = 18/114 (15%), Gaps = 15/114 (13%)
Query: 143 HVQVSALAPPAEAHARIAYALSELRKYIIPDVNDEIRQEQFREMGYVHHEPRPQM----- 197
VQ+S E A+ + + E
Sbjct: 133 FVQLSPTFVAYEGFEEDVPAVQDPTADRGEEAAAPAGTGDAEEGAEAEDGLVRFFTRLSA 192
Query: 198 ---RHPRPPPHMVAARPAPGLLA--PPRMQHAAPP-----HMVRPPHPPPPPAA 241
H P + P Q V P +
Sbjct: 193 FLEEHGVDTPATEFLIAPNRCIVALPRTFQIKGDTVGDNYTFVGPTYGDRSHQG 246
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 27.6 bits (60), Expect = 9.3
Identities = 6/46 (13%), Positives = 9/46 (19%)
Query: 194 RPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPP 239
P V + + P + PPP
Sbjct: 6 SAITVRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTN 51
>2vns_A Metalloreductase steap3; metal-binding, transmembrane, rossmann
fold, transport, cell cycle, transferrin, flavoprotein,
alternative splicing; HET: CIT; 2.0A {Homo sapiens} PDB:
2vq3_A*
Length = 215
Score = 26.8 bits (59), Expect = 9.8
Identities = 19/147 (12%), Positives = 33/147 (22%), Gaps = 28/147 (19%)
Query: 105 ETMTKMSILGKGSM-------------------RDRSKEEELRKEGDPKNAHLVEDLHVQ 145
+ K+ ILG G R+ + L +
Sbjct: 26 DEAPKVGILGSGDFARSLATRLVGSGFKVVVGSRNPKRTARLFPSAAQVTFQEEAVSSPE 85
Query: 146 VSALAPPAEAHARIAYALSELRKYIIPDVNDEIRQEQFREMGYVHHEPRPQMRHPRPPPH 205
V +A E ++ + +L I+ DV++ QE H +
Sbjct: 86 VIFVAVFREHYSSLCSLSDQLAGKILVDVSNPTEQE---------HLQHRESNAEYLASL 136
Query: 206 MVAARPAPGLLAPPRMQHAAPPHMVRP 232
A P
Sbjct: 137 FPTCTVVKAFNVISAWTLQAGPRDGNR 163
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 27.0 bits (59), Expect = 9.9
Identities = 10/48 (20%), Positives = 10/48 (20%), Gaps = 3/48 (6%)
Query: 193 PRPQMRHPRPPPHMVAARPAPGLLAPPRMQHAAPPHMVRPPHPPPPPA 240
P R P R P P P PP P
Sbjct: 177 PGGSSRAAFPQGGRGRGRFPGA---VPGGDRFPGPAGPGGPPPPFPAG 221
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
0.311 0.129 0.371
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,366,763
Number of extensions: 397234
Number of successful extensions: 1361
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1190
Number of HSP's successfully gapped: 163
Length of query: 402
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 306
Effective length of database: 4,021,377
Effective search space: 1230541362
Effective search space used: 1230541362
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 (21.8 bits)
S2: 58 (26.2 bits)