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= psy12195
(254 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 46/174 (26%), Positives = 66/174 (37%), Gaps = 9/174 (5%)
Query: 76 YECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSI 135
Y C +C K+ + L + H + C C F +K L +H
Sbjct: 22 YACPECG-KSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTH--TGEKPY 78
Query: 136 QCNMCSLVLDSKESLVTHISQTHTL--MFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCN 193
+C C + +L H +THT + C C +F A L H + K Y+C
Sbjct: 79 KCPECGKSFSQRANLRAH-QRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCP 137
Query: 194 ECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLGKE 247
EC +SF R + L H Q + +CP C FS L H H GK+
Sbjct: 138 ECGKSFSREDNL--HTHQRTHTGEKPYKCPECGKSFSRRDALNVH-QRTHTGKK 188
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 169 STFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITD 228
S F +S+++++ +E K Y C EC +SF R + L H Q + +CP C
Sbjct: 2 SEFGSSSSVAQ-AALEPGEKPYACPECGKSFSRSDHLAEH--QRTHTGEKPYKCPECGKS 58
Query: 229 FSEDKNLIQH 238
FS+ K+L +H
Sbjct: 59 FSDKKDLTRH 68
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 2/77 (2%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQ 221
F C+ C +F S+TLS H+ + +++ Y C C + F + + +K+H F + H +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPH--K 59
Query: 222 CPYCITDFSEDKNLIQH 238
C C FS+ NLI H
Sbjct: 60 CQVCGKAFSQSSNLITH 76
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 1/76 (1%)
Query: 134 SIQCNMCSLVLDSKESLVTHI-SQTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQC 192
S C +C +L TH+ + T + C+ C F + + KH + K ++C
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKC 60
Query: 193 NECPESFERLNKLKRH 208
C ++F + + L H
Sbjct: 61 QVCGKAFSQSSNLITH 76
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 4/84 (4%)
Query: 76 YECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSI 135
++C C + +T+ H + H C C FH K+ + KH ++
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLI-HSDTRPYPCQYCGKRFHQKSDMKKHTFIH--TGEKPH 58
Query: 136 QCNMCSLVLDSKESLVTHISQTHT 159
+C +C +L+TH S+ HT
Sbjct: 59 KCQVCGKAFSQSSNLITH-SRKHT 81
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQ 221
+ C C +F S+ L KH + K Y+C EC +SF + + L++H Q + +
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKH--QRTHTGEKPYK 62
Query: 222 CPYCITDFSEDKNLIQH 238
CP C FS +L +H
Sbjct: 63 CPECGKSFSRSDHLSRH 79
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 135 IQCNMCSLVLDSKESLVTHISQTHTL--MFTCRRCPSTFLNSATLSKHVKMEHNSKSYQC 192
+C C +L H +THT + C C +F S+ L KH + K Y+C
Sbjct: 5 YKCPECGKSFSQSSNLQKH-QRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKC 63
Query: 193 NECPESFERLNKLKRHK 209
EC +SF R + L RH+
Sbjct: 64 PECGKSFSRSDHLSRHQ 80
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLGKE 247
K Y+C EC +SF + + L++H Q + +CP C FS+ +L +H H G++
Sbjct: 3 KPYKCPECGKSFSQSSNLQKH--QRTHTGEKPYKCPECGKSFSQSSDLQKH-QRTHTGEK 59
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 31/90 (34%), Gaps = 5/90 (5%)
Query: 101 MDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHISQTHTL 160
M+ C C F + L KH +C C L H +THT
Sbjct: 1 MEKPYKCPECGKSFSQSSNLQKHQRTH--TGEKPYKCPECGKSFSQSSDLQKH-QRTHTG 57
Query: 161 --MFTCRRCPSTFLNSATLSKHVKMEHNSK 188
+ C C +F S LS+H + N K
Sbjct: 58 EKPYKCPECGKSFSRSDHLSRHQRTHQNKK 87
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
Length = 66
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 27/55 (49%)
Query: 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVH 243
+Y+C C + ++ RH +H +V CP+C +F+ N+ H+ +H
Sbjct: 10 TYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAHVKIIH 64
>pdb|1UBD|C Chain C, Co-Crystal Structure Of Human Yy1 Zinc Finger Domain Bound
To The Adeno-Associated Virus P5 Initiator Element
Length = 124
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 2/81 (2%)
Query: 165 RRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY 224
+ C F +++ + KH+ H + + C EC ++F +KLKRH+ + Q
Sbjct: 11 KGCTKMFRDNSAMRKHLHT-HGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEG 69
Query: 225 CITDFSEDKNLIQHIVSVHLG 245
C FS D NL H V +H G
Sbjct: 70 CGKRFSLDFNLRTH-VRIHTG 89
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 30/120 (25%), Positives = 52/120 (43%), Gaps = 6/120 (5%)
Query: 130 ATSLSIQCNMCSLVLDSKESLVTHISQ-THTLMFTCRRCPSTFLNSATLSKHVK---MEH 185
+ S ++C C SK L H + T F C +C + L +H M
Sbjct: 3 SGSSGVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNR 62
Query: 186 NSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLG 245
+ + + C+ C E+F R +L+ H +H + +C C F + K+L H++ +H G
Sbjct: 63 SEQVFTCSVCQETFRRRMELRLH-MVSHTGEM-PYKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 47/117 (40%), Gaps = 2/117 (1%)
Query: 16 IRCETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPRDEILPHLSIQHCQGTTPSI 75
+ C TC + + S L H + KH+ + +C C R E L ++C + +
Sbjct: 8 VECPTCHKKFLSKYYLKVH-NRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQV 66
Query: 76 YECNQCKEKTNDMTTMLNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATS 132
+ C+ C+E T L + V H ++ C C F K L H+ H S
Sbjct: 67 FTCSVCQE-TFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSGPS 122
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C SL HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C K +L THI T F CR C F A+L+ H++ K + C+ C
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F L+ RH
Sbjct: 72 FATLHTRTRH 81
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 130 ATSLSIQCNMCSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSK 188
+S +C +C K+ L TH+ T + C+ C +S++L+KH+++ + +
Sbjct: 4 GSSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLRIHSDER 63
Query: 189 SYQCNECPESFERLNKLKRH 208
++C CP + ++L H
Sbjct: 64 PFKCQICPYASRNSSQLTVH 83
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C + L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C + L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C + L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 70
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 71 FARSDERKRH 80
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%)
Query: 156 QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESF 199
Q + C C +F +S+ LSKH + K Y+C+EC ++F
Sbjct: 13 QRERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAF 56
>pdb|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
Length = 119
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQCN--ECPESFERLNKLKRHKFQAHNDSVHQIQCPY 224
C + + L H + K YQC+ +C F R ++LKRH Q + V QC
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRH--QRRHTGVKPFQCKT 71
Query: 225 CITDFSEDKNLIQHIVSVHLGKE 247
C FS +L H H G++
Sbjct: 72 CQRKFSRSDHLKTH-TRTHTGEK 93
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 28/72 (38%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCI 226
C F S L +H + K +QC C F R + LK H + + P C
Sbjct: 44 CERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQ 103
Query: 227 TDFSEDKNLIQH 238
F+ L++H
Sbjct: 104 KKFARSDELVRH 115
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C +L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 2/84 (2%)
Query: 163 TCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQ- 221
C C F + L++H K Y C C F+R +++ H ++H+ SV +
Sbjct: 9 ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYH-VRSHDGSVGKPYI 67
Query: 222 CPYCITDFSEDKNLIQHIVSVHLG 245
C C FS +L HI VH G
Sbjct: 68 CQSCGKGFSRPDHLNGHIKQVHSG 91
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 25/68 (36%)
Query: 92 LNHYSVKHYMDINMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLV 151
LN + + H + SC C + F K + H+ + C C + L
Sbjct: 23 LNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSRPDHLN 82
Query: 152 THISQTHT 159
HI Q H+
Sbjct: 83 GHIKQVHS 90
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 35/89 (39%), Gaps = 5/89 (5%)
Query: 104 NMSCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTHISQTHTLM-- 161
++C C +F + L +H L H C +C L K+ + H+ +
Sbjct: 7 GVACEICGKIFRDVYHLNRHK-LSHSGEK-PYSCPVCGLRFKRKDRMSYHVRSHDGSVGK 64
Query: 162 -FTCRRCPSTFLNSATLSKHVKMEHNSKS 189
+ C+ C F L+ H+K H+ S
Sbjct: 65 PYICQSCGKGFSRPDHLNGHIKQVHSGPS 93
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%)
Query: 186 NSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVH 243
K Y+C C F + +K H Q H ++V + CP+C T + +L H+ H
Sbjct: 12 GEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHLRKQH 69
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHK 209
F CR C F S L+ H++ K + C+ C F R ++ KRH+
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHR 51
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 18 CETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPR-DEILPHLSIQH 67
C C RN+ + LTTH+ H+ + C C R DE H IQH
Sbjct: 6 CRICMRNFSRSDHLTTHIR-THTGEKPFACDICGRKFARSDERKRHRDIQH 55
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C L HI T F CR C F S L+ H++ K + C+ C
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F R ++ KRH
Sbjct: 72 FARSDERKRH 81
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 29/70 (41%), Gaps = 1/70 (1%)
Query: 140 CSLVLDSKESLVTHIS-QTHTLMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPES 198
C K +L THI T F CR C F L++H++ K + C+ C
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Query: 199 FERLNKLKRH 208
F L+ RH
Sbjct: 72 FATLHTRDRH 81
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 34.7 bits (78), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 137 CNMCSLVLDSKESLVTHISQTHTL-MFTCRRCPSTFLNSATLSKHVKMEHNSK 188
C +C SK + H+ H +F C+ CP+TF +S L++H+ H S+
Sbjct: 31 CPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCHPSE 83
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%)
Query: 164 CRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRH 208
C C +F + +H+++ H ++ + C CP +F L RH
Sbjct: 31 CPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRH 75
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 24/60 (40%), Gaps = 5/60 (8%)
Query: 187 SKSYQCNECP---ESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVH 243
S S +C+ CP ESF +RH H V C YC F L +HI H
Sbjct: 23 SASAECHLCPVCGESFASKGAQERHLRLLHAAQV--FPCKYCPATFYSSPGLTRHINKCH 80
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 34.7 bits (78), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 22/47 (46%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRH 208
+ C RC ++F L+ H + K Y+CN C F R LK H
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTH 64
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY----CITDFSEDKNLIQHIVSVH 243
K Y+C+ C SF L HK +VH + PY C F+ NL H +H
Sbjct: 16 KPYKCDRCQASFRYKGNLASHK------TVHTGEKPYRCNICGAQFNRPANLKTH-TRIH 68
Query: 244 LGKE 247
G++
Sbjct: 69 SGEK 72
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 26/58 (44%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQ 219
F C C F L +H + N K Y C C +F R + L RH + H+ ++ +
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHSGNLGE 60
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 189 SYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVHLGKEG 248
S+ C C +F R LKRH +++H + C C F+ LI+H +H G G
Sbjct: 2 SFVCEVCTRAFARQEHLKRH-YRSHTNE-KPYPCGLCNRAFTRRDLLIRHAQKIHSGNLG 59
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 18 CETCTRNYESLESLTTHLSFKHSNQFLMKCTNCNVLVPRDEILPHLSIQHCQ 69
CE CTR + E L H H+N+ C CN R ++L I+H Q
Sbjct: 5 CEVCTRAFARQEHLKRHYR-SHTNEKPYPCGLCNRAFTRRDLL----IRHAQ 51
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 33.9 bits (76), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQC--NECPESFERLNKLKRHKFQAHNDSVHQIQCPY 224
C T+ S+ L H++ K Y C + C F R ++L RH ++ H QC
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRH-YRKHTGHR-PFQCQK 71
Query: 225 CITDFSEDKNLIQHI 239
C FS +L H+
Sbjct: 72 CDRAFSRSDHLALHM 86
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 4/75 (5%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQC--NECPESFERLNKLKRHKFQAHNDSVHQIQCPY 224
C T+ S+ L H++ K Y C + C F R ++L RH ++ H QC
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRH-YRKHTGHR-PFQCQK 70
Query: 225 CITDFSEDKNLIQHI 239
C FS +L H+
Sbjct: 71 CDRAFSRSDHLALHM 85
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQ 221
F C+ C F S L H + + + Y C+ C ++F R + L+ H++ + +
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKP--FK 75
Query: 222 CPYCITDFSEDKNLIQH 238
C C F + + L H
Sbjct: 76 CQECGKGFCQSRTLAVH 92
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 3/75 (4%)
Query: 137 CNMCSLVLDSKESLVTHISQTHT--LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNE 194
C C +L+ H +THT +TC C F L H + K ++C E
Sbjct: 20 CKFCGRHFTKSYNLLIH-ERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQE 78
Query: 195 CPESFERLNKLKRHK 209
C + F + L HK
Sbjct: 79 CGKGFCQSRTLAVHK 93
>pdb|2EQ2|A Chain A, Solution Structure Of The 16th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 188 KSYQCNECPESFERLNKLKRHK 209
K YQCNEC ++F + +KL RH+
Sbjct: 11 KPYQCNECGKAFSQTSKLARHQ 32
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHK 209
+ C C F S+ L +H ++ K Y+C EC ++F + + L H+
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQ 62
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 188 KSYQCNECPESFERLNKLKRHKFQAHNDSVHQIQCPY----CITDFSEDKNLIQH 238
K Y C EC ++F R + L +H+ VH + PY C FS++ LI H
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQ------RVHTGEKPYKCLECGKAFSQNSGLINH 61
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 140 CSLVLDSKESLVTHISQTHT----LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNEC 195
C+ V L H+ +THT T C F S L++H + +K +QC C
Sbjct: 23 CTKVYTKSSHLKAHL-RTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVC 81
Query: 196 PESFERLNKLKRH 208
SF R + L H
Sbjct: 82 NRSFSRSDHLALH 94
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 30.4 bits (67), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 59/149 (39%), Gaps = 12/149 (8%)
Query: 106 SCVPCDVLFHNKATLYKHLYLEHKATSLSIQCNMCSLVLDSKESLVTH-ISQTHTLMFTC 164
S C ++ L HL + C S L H ++ T FTC
Sbjct: 16 SFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTC 75
Query: 165 R--RCPSTFLNSATLSKHVKMEHNSK--SYQCN--ECPESFERLNKLKRHKFQAHNDSVH 218
C F A + KH HN K Y C+ C ++F++ N+LK H+F +H +
Sbjct: 76 DSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQF-SHTQQL- 133
Query: 219 QIQCPY--CITDFSEDKNLIQHIVSVHLG 245
+CP+ C FS L +H VH G
Sbjct: 134 PYECPHEGCDKRFSLPSRLKRH-EKVHAG 161
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
In Complex With Methylated Cpg Site Dna
Length = 133
Score = 30.4 bits (67), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 35/84 (41%), Gaps = 2/84 (2%)
Query: 160 LMFTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAHNDSVHQ 219
+ + C C +++ +L +H + K Y C C + F +H + H+ +
Sbjct: 21 VYYICIVCKRSYVCLTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKH--EIHHTGERR 78
Query: 220 IQCPYCITDFSEDKNLIQHIVSVH 243
QC C F + + HI SVH
Sbjct: 79 YQCLACGKSFINYQFMSSHIKSVH 102
>pdb|1VA3|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna Binding
Domain (Zinc Finger 3)
pdb|1SP1|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f3, Minimized Average Structure
Length = 29
Score = 30.4 bits (67), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSK 188
F C CP F+ S LSKH+K N K
Sbjct: 3 FACPECPKRFMRSDHLSKHIKTHQNKK 29
>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human Zinc
Finger Protein 512
Length = 96
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 29/71 (40%), Gaps = 2/71 (2%)
Query: 118 ATLYKHLYLEHKATSLSIQCNMCSLV-LDSKESLVTHISQTHTLMFTCRRCPSTFLNSAT 176
+L + YLE S+ C C V + E L H+ MFTC C + A
Sbjct: 19 GSLEEQWYLE-IVDKGSVSCPTCQAVGRKTIEGLKKHMENCKQEMFTCHHCGKQLRSLAG 77
Query: 177 LSKHVKMEHNS 187
+ HV HNS
Sbjct: 78 MKYHVMANHNS 88
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 155 SQTHTL--MFTCRRCPSTFLNSATLSKHVKMEHNS----KSYQCNECPESFERLNKLKRH 208
+THT + C C TF L H K H+ ++ C++C ++F R N + RH
Sbjct: 7 GRTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARH 66
>pdb|2KFQ|A Chain A, Nmr Structure Of Fp1
Length = 32
Score = 29.6 bits (65), Expect = 1.6, Method: Composition-based stats.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 162 FTCRRCPSTFLNSATLSKHVK 182
F C CP F+ S LSKH+K
Sbjct: 3 FACPACPKRFMRSDALSKHIK 23
>pdb|2YTR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
760- 792) Of Human Zinc Finger Protein 347
Length = 46
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 188 KSYQCNECPESFERLNKLKRHK 209
K Y+CNEC ++F + +KL RH+
Sbjct: 11 KPYKCNECGKAFSQTSKLARHQ 32
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
Length = 73
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRH 208
C F S L++H+++ K +QC C +F R + L H
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 68
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 43/117 (36%), Gaps = 11/117 (9%)
Query: 138 NMCSLVLDSKESLVTHISQTHT---------LMFTCRRCPSTFLNSATLSKHVKMEHNSK 188
+ CS DS+E LV HI+ H C R F L H++ K
Sbjct: 7 DGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEK 66
Query: 189 SYQC--NECPESFERLNKLKRHKFQAHNDSVHQIQCPYCITDFSEDKNLIQHIVSVH 243
++C C +S+ RL LK H + + + C FS + +H H
Sbjct: 67 PHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTH 123
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
Query: 167 CPSTFLNSATLSKHVKMEHNSKSYQCN--ECPESFERLNKLKRHKFQAH-NDSVHQIQCP 223
C ++ L H++ K Y C C ++F + +H+ + H N+ + + P
Sbjct: 75 CRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLP 134
Query: 224 YCITDFSEDKNLIQHIVSVH 243
C +++ +L +H+ +VH
Sbjct: 135 GCTKRYTDPSSLRKHVKTVH 154
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 29.3 bits (64), Expect = 2.4, Method: Composition-based stats.
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRH 208
F C C T+ +++ LS+H + + C EC + F +++ RH
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRAHLGYRPRSCPECGKCFRDQSEVNRH 51
>pdb|3ZEY|M Chain M, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 153
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 21/48 (43%)
Query: 166 RCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRHKFQAH 213
+ P FLN K K EH + S E ERL K++ H+ H
Sbjct: 79 KIPEWFLNRQRDPKTGKTEHLTSSMVDTRLREDLERLRKIRAHRGVRH 126
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 20/47 (42%)
Query: 162 FTCRRCPSTFLNSATLSKHVKMEHNSKSYQCNECPESFERLNKLKRH 208
+ C C F L H+K+ K Y+CN C + F + RH
Sbjct: 38 YGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRH 84
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
0.321 0.130 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,265,812
Number of Sequences: 62578
Number of extensions: 272408
Number of successful extensions: 999
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 52
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 823
Number of HSP's gapped (non-prelim): 152
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)