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= psy1815
(238 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PSI|A Chain A, Crystal Structure Of The Spt6 Core Domain From Saccharomyces
Cerevisiae, Form Spt6(239-1451)
Length = 1219
Score = 95.9 bits (237), Expect = 2e-20, Method: Composition-based stats.
Identities = 53/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++GE ++R SS+G DHL +TWK+ DL+QHID++E KEN +LG+ L + +++ DLD+
Sbjct: 1043 ERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELEKENPLALGKVLIVDNQKYNDLDQ 1102
Query: 62 IIARHVSPMAANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPG 121
II ++ + E+ S ++ G + + + R NPNK Y+ SL+ + PG
Sbjct: 1103 IIVEYLQNKVRLLNEMTSSEKFKS---GTKKDVVKFIEDYSRVNPNKSVYYFSLNHDNPG 1159
Query: 122 KFLLSYLPASRSRHEF--ISVTPEGFRFRGQQFDSVNSLFRWFK 163
F L + + S+ + +T G+ + SV L FK
Sbjct: 1160 WFYLMFKINANSKLYTWNVKLTNTGYFLVNYNYPSVIQLCNGFK 1203
>pdb|2L3T|A Chain A, Solution Structure Of Tandem Sh2 Domain From Spt6
Length = 199
Score = 95.5 bits (236), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++GE ++R SS+G DHL +TWK+ DL+QHID++E KEN +LG+ L + +++ DLD+
Sbjct: 26 ERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELEKENPLALGKVLIVDNQKYNDLDQ 85
Query: 62 IIARHVSPMAANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPG 121
II ++ + E+ S ++ G + + + R NPNK Y+ SL+ + PG
Sbjct: 86 IIVEYLQNKVRLLNEMTSSEKFK---SGTKKDVVKFIEDYSRVNPNKSVYYFSLNHDNPG 142
Query: 122 KFLLSYLPASRSRHEF--ISVTPEGFRFRGQQFDSVNSLFRWFK 163
F L + + S+ + +T G+ + SV L FK
Sbjct: 143 WFYLMFKINANSKLYTWNVKLTNTGYFLVNYNYPSVIQLCNGFK 186
>pdb|3PSK|A Chain A, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|B Chain B, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|C Chain C, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|D Chain D, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
Length = 211
Score = 95.5 bits (236), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 89/164 (54%), Gaps = 5/164 (3%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++GE ++R SS+G DHL +TWK+ DL+QHID++E KEN +LG+ L + +++ DLD+
Sbjct: 35 ERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELEKENPLALGKVLIVDNQKYNDLDQ 94
Query: 62 IIARHVSPMAANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPG 121
II ++ + E+ S ++ G + + + R NPNK Y+ SL+ + PG
Sbjct: 95 IIVEYLQNKVRLLNEMTSSEKFK---SGTKKDVVKFIEDYSRVNPNKSVYYFSLNHDNPG 151
Query: 122 KFLLSYLPASRSRHEF--ISVTPEGFRFRGQQFDSVNSLFRWFK 163
F L + + S+ + +T G+ + SV L FK
Sbjct: 152 WFYLMFKINANSKLYTWNVKLTNTGYFLVNYNYPSVIQLCNGFK 195
>pdb|3PSJ|A Chain A, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Se-Spt6 (1247-1451)
Length = 210
Score = 94.4 bits (233), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 88/164 (53%), Gaps = 5/164 (3%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++GE ++R SS+G DHL +TWK+ DL+QHID++E KEN +LG+ L + +++ DLD+
Sbjct: 34 ERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELEKENPLALGKVLIVDNQKYNDLDQ 93
Query: 62 IIARHVSPMAANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPG 121
II ++ + E S ++ G + + + R NPNK Y+ SL+ + PG
Sbjct: 94 IIVEYLQNKVRLLNEXTSSEKFK---SGTKKDVVKFIEDYSRVNPNKSVYYFSLNHDNPG 150
Query: 122 KFLLSYLPASRSRHEF--ISVTPEGFRFRGQQFDSVNSLFRWFK 163
F L + + S+ + +T G+ + SV L FK
Sbjct: 151 WFYLXFKINANSKLYTWNVKLTNTGYFLVNYNYPSVIQLCNGFK 194
>pdb|3PJP|A Chain A, A Tandem Sh2 Domain In Transcription Elongation Factor
Spt6 Binds The Phosphorylated Rna Polymerase Ii
C-Terminal Repeat Domain(Ctd)
pdb|3PJP|B Chain B, A Tandem Sh2 Domain In Transcription Elongation Factor
Spt6 Binds The Phosphorylated Rna Polymerase Ii
C-Terminal Repeat Domain(Ctd)
Length = 199
Score = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/164 (30%), Positives = 87/164 (53%), Gaps = 5/164 (3%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++G+ ++R SS+G DHL +TWK+ DL+QH+D++E KEN +LG+ L + + + DLD+
Sbjct: 29 ERGDFVIRQSSRGDDHLAITWKLDKDLFQHVDIQELEKENPLALGKVLVVEGQRYHDLDQ 88
Query: 62 IIARHVSPMAANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPG 121
II ++ + EL S ++ G + + + + + NP K Y+ SL+ PG
Sbjct: 89 IIVEYLQNKIRLLNELTSNEKFK---AGTKKEVVKFIEDYSKVNPKKSVYYFSLNYENPG 145
Query: 122 KFLLSYLPASRSRHEF--ISVTPEGFRFRGQQFDSVNSLFRWFK 163
F L + + S+ + +T GF + +V L FK
Sbjct: 146 WFYLIFKLNAESKLYIWNVKLTHTGFFLVNYNYPTVIQLCNGFK 189
>pdb|3GXW|A Chain A, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|B Chain B, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|C Chain C, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|D Chain D, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXX|A Chain A, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|B Chain B, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|C Chain C, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|D Chain D, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
Length = 103
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 47/67 (70%)
Query: 2 DQGEVIVRPSSKGADHLTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDE 61
++G+ ++R SS+G DHL +TWK+ DL+QH+D++E KEN + G+ L + + + DLD+
Sbjct: 29 ERGDFVIRQSSRGDDHLAITWKLDKDLFQHVDIQEXEKENPLAXGKVLVVEGQRYHDLDQ 88
Query: 62 IIARHVS 68
II ++
Sbjct: 89 IIVEYLQ 95
>pdb|2XP1|A Chain A, Structure Of The Tandem Sh2 Domains From Antonospora
Locustae Transcription Elongation Factor Spt6
Length = 178
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 69/151 (45%), Gaps = 19/151 (12%)
Query: 13 KGADH--LTVTWKVADDLYQHIDVREEGKENSFSLGRSLWIGTEEFEDLDEIIARHVSPM 70
KG+ H + K A D++ H+ + E + + S + FED+DE+I+ +V P+
Sbjct: 40 KGSRHGYCVLVIKFASDVFVHMKIEEHSEHYTCS--------NKHFEDIDEVISVYVRPI 91
Query: 71 AANVRELLSFRYYREECGGMRDKAEEVLRQEKRNNPNKIHYFVSLSKNYPGKFLLSYLPA 130
N++ + + Y + AE++L + +K+ Y S+ YPGK +Y
Sbjct: 92 LRNLKSIKAHAKY----FNSPEDAEKLLSSF---DGSKVVYAFYFSRKYPGKLTFAYNNG 144
Query: 131 SRSRHEFISVTPEGFRFRGQQFDSVNSLFRW 161
S E+I V+ + + F ++S +
Sbjct: 145 S-ILEEYIGVS-DMLTYNNSTFKDIDSFVAY 173
>pdb|2EYZ|A Chain A, Ct10-Regulated Kinase Isoform Ii
Length = 304
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFIS------------------VTPEGFRFRGQQF 152
+ V S PG ++LS SR H I+ V+P R Q+F
Sbjct: 35 FLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPRPPVPPSPAQPPPGVSPSRLRIGDQEF 94
Query: 153 DSVNSLFRWFKEHFRD 168
DS+ +L ++K H+ D
Sbjct: 95 DSLPALLEFYKIHYLD 110
>pdb|2DVJ|A Chain A, Phosphorylated Crk-Ii
Length = 230
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFIS------------------VTPEGFRFRGQQF 152
+ V S PG ++LS SR H I+ V+P R Q+F
Sbjct: 37 FLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPRPPVPPSPAQPPPGVSPSRLRIGDQEF 96
Query: 153 DSVNSLFRWFKEHFRD 168
DS+ +L ++K H+ D
Sbjct: 97 DSLPALLEFYKIHYLD 112
>pdb|2EYV|A Chain A, Sh2 Domain Of Ct10-Regulated Kinase
Length = 124
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFIS------------------VTPEGFRFRGQQF 152
+ V S PG ++LS SR H I+ V+P R Q+F
Sbjct: 34 FLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPRPPVPPSPAQPPPGVSPSRLRIGDQEF 93
Query: 153 DSVNSLFRWFKEHFRD 168
DS+ +L ++K H+ D
Sbjct: 94 DSLPALLEFYKIHYLD 109
>pdb|2EYY|A Chain A, Ct10-Regulated Kinase Isoform I
Length = 204
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFIS------------------VTPEGFRFRGQQF 152
+ V S PG ++LS SR H I+ V+P R Q+F
Sbjct: 35 FLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPRPPVPPSPAQPPPGVSPSRLRIGDQEF 94
Query: 153 DSVNSLFRWFKEHFRD 168
DS+ +L ++K H+ D
Sbjct: 95 DSLPALLEFYKIHYLD 110
>pdb|1JU5|A Chain A, Ternary Complex Of An Crk Sh2 Domain, Crk-Derived
Phophopeptide, And Abl Sh3 Domain By Nmr Spectroscopy
Length = 109
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 18/76 (23%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFIS------------------VTPEGFRFRGQQF 152
+ V S PG ++LS SR H I+ V+P R Q+F
Sbjct: 24 FLVRDSSTSPGDYVLSVSENSRVSHYIINSSGPRPPVPPSPAQPPPGVSPSRLRIGDQEF 83
Query: 153 DSVNSLFRWFKEHFRD 168
DS+ +L ++K H+ D
Sbjct: 84 DSLPALLEFYKIHYLD 99
>pdb|2ZXK|A Chain A, Crystal Structure Of Semet-Red Chlorophyll Catabolite
Reductase
pdb|2ZXK|B Chain B, Crystal Structure Of Semet-Red Chlorophyll Catabolite
Reductase
Length = 285
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%)
Query: 49 LWIGTEEFEDLDEIIARHVSPMAANVRELLSFRYYREE 86
L I EE + L+EI+ HVSP A V E+ R +EE
Sbjct: 191 LKIDAEEEDKLEEILRDHVSPAAKEVLEVWLERCVKEE 228
>pdb|3AGB|A Chain A, F218v Mutant Of The Substrate-Free Form Of Red Chlorophyll
Catabolite Reductase From Arabidopsis Thaliana
pdb|3AGB|B Chain B, F218v Mutant Of The Substrate-Free Form Of Red Chlorophyll
Catabolite Reductase From Arabidopsis Thaliana
pdb|3AGC|A Chain A, F218v Mutant Of The Substrate-Bound Red Chlorophyll
Catabolite Reductase From Arabidopsis Thaliana
pdb|3AGC|B Chain B, F218v Mutant Of The Substrate-Bound Red Chlorophyll
Catabolite Reductase From Arabidopsis Thaliana
Length = 276
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%)
Query: 49 LWIGTEEFEDLDEIIARHVSPMAANVRELLSFRYYREE 86
L I EE + L+EI+ HVSP A V E+ R +EE
Sbjct: 182 LKIDAEEEDKLEEILRDHVSPAAKEVLEVWLERCVKEE 219
>pdb|2ZXL|A Chain A, Crystal Structure Of Red Chlorophyll Catabolite Reductase
From Arabidopsis Thaliana
pdb|2ZXL|B Chain B, Crystal Structure Of Red Chlorophyll Catabolite Reductase
From Arabidopsis Thaliana
Length = 285
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%)
Query: 49 LWIGTEEFEDLDEIIARHVSPMAANVRELLSFRYYREE 86
L I EE + L+EI+ HVSP A V E+ R +EE
Sbjct: 191 LKIDAEEEDKLEEILRDHVSPAAKEVLEVWLERCVKEE 228
>pdb|3AGA|A Chain A, Crystal Structure Of Rcc-Bound Red Chlorophyll Catabolite
Reductase From Arabidopsis Thaliana
pdb|3AGA|B Chain B, Crystal Structure Of Rcc-Bound Red Chlorophyll Catabolite
Reductase From Arabidopsis Thaliana
Length = 276
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 22/38 (57%)
Query: 49 LWIGTEEFEDLDEIIARHVSPMAANVRELLSFRYYREE 86
L I EE + L+EI+ HVSP A V E+ R +EE
Sbjct: 182 LKIDAEEEDKLEEILRDHVSPAAKEVLEVWLERCVKEE 219
>pdb|2KK6|A Chain A, Solution Structure Of Sh2 Domain Of Proto-Oncogene
Tyrosine- Protein Kinase Fer From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr3461d
Length = 116
Score = 30.4 bits (67), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 91 RDKAEEVLRQEKRNNPNKIHYFVSLSKNYPGKFLLSYLPASRSRHEFISVTPEGFRFRGQ 150
R +A+E+L+++ + V S PG+++LS + RH I +RF G
Sbjct: 26 RIEAQELLKKQG-------DFLVRESHGKPGEYVLSVYSDGQRRHFIIQYVDNMYRFEGT 78
Query: 151 QFDSVNSLF 159
F ++ L
Sbjct: 79 GFSNIPQLI 87
>pdb|1MIL|A Chain A, Transforming Protein
Length = 104
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 111 YFVSLSKNYPGKFLLSYLPASRSRHEFISVTPEG-FRFRGQQFDSVNSLFRW 161
+ V S PG+++L+ L + + +H + V PEG R + +F+SV+ L +
Sbjct: 29 FLVRESTTTPGQYVLTGLQSGQPKH-LLLVDPEGVVRTKDHRFESVSHLISY 79
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
0.319 0.137 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,345,533
Number of Sequences: 62578
Number of extensions: 354147
Number of successful extensions: 660
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 636
Number of HSP's gapped (non-prelim): 24
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)