BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000192
(1887 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GML|A Chain A, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|B Chain B, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|C Chain C, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|D Chain D, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|E Chain E, Crystal Structure Of Human Not1 Mif4g Domain
pdb|4GML|F Chain F, Crystal Structure Of Human Not1 Mif4g Domain
Length = 235
Score = 224 bits (572), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 104/214 (48%), Positives = 154/214 (71%), Gaps = 2/214 (0%)
Query: 970 VQDKISFIINNISALNVEAKAKEFTEILKEQYYPWFAQYMVMKRASIEPNFHDLYLKFLD 1029
+Q+KI+FI NN+S N+ K +E E +KE++ PW +QY+VMKR SIEPNFH LY FLD
Sbjct: 13 IQEKIAFIFNNLSQSNMTQKVEELKETVKEEFMPWVSQYLVMKRVSIEPNFHSLYSNFLD 72
Query: 1030 KVNSKALNREIVQATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRARE 1089
+ + N+ ++ TY N KVLL S+ ++ +RSLLKNLG WLG +T+ +N+ + +
Sbjct: 73 TLKNPEFNKMVLNETYRNIKVLLTSDKAAANFSDRSLLKNLGHWLGMITLAKNKPILHTD 132
Query: 1090 IDPKSLIIEAYEKGL--MIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIYSMPN 1147
+D KSL++EAY KG ++ V+PF +K+LE S+ ++PPNPWTMAI+ +LAE++ +
Sbjct: 133 LDVKSLLLEAYVKGQQELLYVVPFVAKVLESSIRSVVFRPPNPWTMAIMNVLAELHQEHD 192
Query: 1148 LKMNLKFDIEVLFKNLGVDMKDITPTSLLKDRKR 1181
LK+NLKF+IEVL KNL +D+ ++ P +LLKD+ R
Sbjct: 193 LKLNLKFEIEVLCKNLALDINELKPGNLLKDKDR 226
>pdb|4GMJ|A Chain A, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|C Chain C, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4GMJ|E Chain E, Structure Of Human Not1 Mif4g Domain Co-Crystallized With
Caf1
Length = 229
Score = 224 bits (572), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 104/214 (48%), Positives = 154/214 (71%), Gaps = 2/214 (0%)
Query: 970 VQDKISFIINNISALNVEAKAKEFTEILKEQYYPWFAQYMVMKRASIEPNFHDLYLKFLD 1029
+Q+KI+FI NN+S N+ K +E E +KE++ PW +QY+VMKR SIEPNFH LY FLD
Sbjct: 7 IQEKIAFIFNNLSQSNMTQKVEELKETVKEEFMPWVSQYLVMKRVSIEPNFHSLYSNFLD 66
Query: 1030 KVNSKALNREIVQATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRARE 1089
+ + N+ ++ TY N KVLL S+ ++ +RSLLKNLG WLG +T+ +N+ + +
Sbjct: 67 TLKNPEFNKMVLNETYRNIKVLLTSDKAAANFSDRSLLKNLGHWLGMITLAKNKPILHTD 126
Query: 1090 IDPKSLIIEAYEKGL--MIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIYSMPN 1147
+D KSL++EAY KG ++ V+PF +K+LE S+ ++PPNPWTMAI+ +LAE++ +
Sbjct: 127 LDVKSLLLEAYVKGQQELLYVVPFVAKVLESSIRSVVFRPPNPWTMAIMNVLAELHQEHD 186
Query: 1148 LKMNLKFDIEVLFKNLGVDMKDITPTSLLKDRKR 1181
LK+NLKF+IEVL KNL +D+ ++ P +LLKD+ R
Sbjct: 187 LKLNLKFEIEVLCKNLALDINELKPGNLLKDKDR 220
>pdb|4B89|A Chain A, Mif4g Domain Of The Yeast Not1
pdb|4B8A|A Chain A, Structure Of Yeast Not1 Mif4g Domain Co-Crystallized With
Caf1
pdb|4B8C|B Chain B, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|G Chain G, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|H Chain H, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|I Chain I, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 249
Score = 154 bits (389), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 75/213 (35%), Positives = 128/213 (60%), Gaps = 2/213 (0%)
Query: 964 EAPASEVQDKISFIINNISALNVEAKAKEFTEILKEQYYPWFAQYMVMKRASIEPNFHDL 1023
E +V +K+ F++NN++ N+ K E + L Y+ WF+ Y+V +RA EPN+HDL
Sbjct: 28 EGAPKDVVEKVLFVLNNVTLANLNNKVDELKKSLTPNYFSWFSTYLVTQRAKTEPNYHDL 87
Query: 1024 YLKFLDKVNSKALNREIVQATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQ 1083
Y K + + S L++ +V T VLL ++ + ++ LKNL SWLG +T+ N+
Sbjct: 88 YSKVIVAMGSGLLHQFMVNVTLRQLFVLLSTK--DEQAIDKKHLKNLASWLGCITLALNK 145
Query: 1084 VLRAREIDPKSLIIEAYEKGLMIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIY 1143
++ + I + ++IEAY++ + V+PF +KIL+ S ++PPNPWT+ IL LL E+
Sbjct: 146 PIKHKNIAFREMLIEAYKENRLEIVVPFVTKILQRASESKIFKPPNPWTVGILKLLIELN 205
Query: 1144 SMPNLKMNLKFDIEVLFKNLGVDMKDITPTSLL 1176
N K++L F++EVL K+ + K + P++ +
Sbjct: 206 EKANWKLSLTFEVEVLLKSFNLTTKSLKPSNFI 238
>pdb|4B8B|A Chain A, N-Terminal Domain Of The Yeast Not1
pdb|4B8B|B Chain B, N-Terminal Domain Of The Yeast Not1
Length = 603
Score = 112 bits (279), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 54/148 (36%), Positives = 86/148 (58%), Gaps = 6/148 (4%)
Query: 651 LQNGEAADSSTSEGYADDIEAEANSYFHQMFSGQLTIEAMVQMLARFKESSVKREHSIFE 710
L NG+ A G +DIE E +Y +M+SG+L I+ ++++L R ++S + R+ +F
Sbjct: 435 LANGDIA------GINNDIEKEMQNYLQKMYSGELAIKDVIELLRRLRDSDLPRDQEVFT 488
Query: 711 CMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHLTLGIALRGVLDALRKPADSK 770
C+ + E FF YP L +VLFGS+I QL+ L +A R ++ ++P +SK
Sbjct: 489 CITHAVIAESTFFQDYPLDALATTSVLFGSMILFQLLRGFVLDVAFRIIMRFAKEPPESK 548
Query: 771 MFVFGTKALEQFVDRLIEWPQYCNHILQ 798
MF F +A+ F RL E+PQYC +L+
Sbjct: 549 MFKFAVQAIYAFRIRLAEYPQYCKDLLR 576
>pdb|3EFZ|A Chain A, Crystal Structure Of A 14-3-3 Protein From Cryptosporidium
Parvum (Cgd1_2980)
pdb|3EFZ|B Chain B, Crystal Structure Of A 14-3-3 Protein From Cryptosporidium
Parvum (Cgd1_2980)
pdb|3EFZ|C Chain C, Crystal Structure Of A 14-3-3 Protein From Cryptosporidium
Parvum (Cgd1_2980)
pdb|3EFZ|D Chain D, Crystal Structure Of A 14-3-3 Protein From Cryptosporidium
Parvum (Cgd1_2980)
Length = 268
Score = 36.2 bits (82), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 17/110 (15%)
Query: 691 VQMLARFKESSVKREHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTH- 749
++ F E +++RE S F KYP L +A +L +I+K+ L+ +
Sbjct: 168 IKQAVEFYEDALQRERS--------------FLEKYPSDPLYLATILNYTILKYDLLGNP 213
Query: 750 -LTLGIALRGVLDALRKPADSKMFVFGT-KALEQFVDRLIEWPQYCNHIL 797
+ A R + A +DS+ F T K L+ D + +W Q C+ +L
Sbjct: 214 EGAMKFANRAIQAAENSRSDSEQFSENTEKLLKILRDNVSQWEQGCSGLL 263
>pdb|3BBO|H Chain H, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 220
Score = 32.3 bits (72), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 8/84 (9%)
Query: 1179 RKREIEG-NPD----FSNKDVGASQPQLVPEVKPAIVSPLGHVDLPLDVASPPNSGGPTH 1233
R R+ +G NP+ N VG + + PE+KP IV +D+ + + +
Sbjct: 125 RTRDFQGVNPNSFDGHGNYSVGFREQSVFPEIKPEIVGKARGMDVCITTTAKTDKEA-YK 183
Query: 1234 LLSQYAAPLRLSSG--TLMEDEKL 1255
LLS P R SG TL+ +KL
Sbjct: 184 LLSLMGMPFREGSGPSTLVRKKKL 207
>pdb|3IZS|J Chain J, Localization Of The Large Subunit Ribosomal Proteins Into A
6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating
80s Ribosome
pdb|3O5H|L Chain L, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3J16|H Chain H, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 165
Score = 30.4 bits (67), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 35/77 (45%), Gaps = 20/77 (25%)
Query: 1459 FDPN----IYAQ---GSMGVPEALRPKPGHLSVSQQRVYEDF-------------VRLPW 1498
FDPN +Y + G +G AL PK G L +S ++V ED V+L
Sbjct: 5 FDPNEVKYLYLRAVGGEVGASAALAPKIGPLGLSPKKVGEDIAKATKEFKGIKVTVQLKI 64
Query: 1499 QNQSSQGSHAMSAGSLT 1515
QN+ + S SA SL
Sbjct: 65 QNRQAAASVVPSASSLV 81
>pdb|2L7N|A Chain A, Nmr Structure Of The B Domain Of Talin
Length = 168
Score = 30.4 bits (67), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 1787 LQTLVTDESRVVISELHNLVDALAKLAAKPGSPESLQQLIEIVR 1830
+Q +V D + V+ + +L++ K + PG PES Q+L ++ +
Sbjct: 108 VQAIVLDTASDVLDKASSLIEEAKKASGHPGDPESQQRLAQVAK 151
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,277,341
Number of Sequences: 62578
Number of extensions: 1968366
Number of successful extensions: 5169
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 5141
Number of HSP's gapped (non-prelim): 56
length of query: 1887
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1774
effective length of database: 7,902,023
effective search space: 14018188802
effective search space used: 14018188802
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)