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= 039602
(2132 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 47.0 bits (110), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 1918 KIAVCTKFLKGLCSNSD-CKLTHKVIPERMPDCSYFLQ-GLCTNKNCPYRHV 1967
K VC +L+GLC D C+ H+ +MP+C ++ + G C+NK CP+ H+
Sbjct: 9 KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMPECYFYSKFGECSNKECPFLHI 60
>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
pdb|2RHK|D Chain D, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
Length = 72
Score = 45.8 bits (107), Expect = 3e-04, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 4/58 (6%)
Query: 1918 KIAVCTKFLKGLCSNSD-CKLTHKVIPERMPDCSYFLQ-GLCTNKNCPYRHVHVNPNA 1973
K VC +L+GLC D C+ H+ +M +C ++ + G C+NK CP+ +H++P +
Sbjct: 15 KTVVCKHWLRGLCKKGDQCEFLHEYDMTKMSECYFYSKFGECSNKECPF--LHIDPES 70
Score = 31.6 bits (70), Expect = 5.2, Method: Composition-based stats.
Identities = 15/32 (46%), Positives = 23/32 (71%), Gaps = 4/32 (12%)
Query: 1890 KRKYCQFFTRFGKCNKDNGKCPYIH-DP-SKI 1919
K C F+++FG+C+ N +CP++H DP SKI
Sbjct: 43 KMSECYFYSKFGECS--NKECPFLHIDPESKI 72
>pdb|2RPP|A Chain A, Solution Structure Of Tandem Zinc Finger Domain 12 In
Muscleblind-Like Protein 2
Length = 89
Score = 35.8 bits (81), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 1919 IAVCTKFLKGLCSNSD--CKLTH-----KVIPERMPDCSYFLQGLCTNKNCPYRH 1966
+ VC +F +G CS SD CK H +V R+ C L+G C+ +NC Y H
Sbjct: 17 LEVCRQFQRGTCSRSDEECKFAHPPKSCQVENGRVIACFDSLKGRCSRENCKYLH 71
Score = 32.3 bits (72), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 1894 CQFFTRFGKCNKDNGKCPYIHDP-------SKIAVCTKFLKGLCSNSDCKLTH 1939
C+ F R G C++ + +C + H P ++ C LKG CS +CK H
Sbjct: 20 CRQFQR-GTCSRSDEECKFAHPPKSCQVENGRVIACFDSLKGRCSRENCKYLH 71
>pdb|3D2N|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 1 And 2 Domain
Length = 83
Score = 32.7 bits (73), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 7/55 (12%)
Query: 1919 IAVCTKFLKGLCSNSD--CKLTH-----KVIPERMPDCSYFLQGLCTNKNCPYRH 1966
+ VC +F +G CS D CK H +V R+ C L+G C+ +NC Y H
Sbjct: 9 LEVCREFQRGTCSRPDTECKFAHPSKSCQVENGRVIACFDSLKGRCSRENCKYLH 63
>pdb|2VOV|A Chain A, An Oxidized Tryptophan Facilitates Copper-binding In
Methylococcus Capsulatus Secreted Protein Mope. The
Stucture Of Wild-type Mope To 1.35aa
pdb|2VOX|A Chain A, An Oxidized Tryptophan Facilitates Copper-Binding In
Methylococcus Capsulatus Secreted Protein Mope. The
Stucture Of Mercury Soaked Mope To 1.9aa
Length = 336
Score = 31.6 bits (70), Expect = 4.4, Method: Composition-based stats.
Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 6/118 (5%)
Query: 900 GPVKAFSSVQSLNTALSVKDSFPVEVRVTEGLDVGLQSSSDGLSVFRGHNSTGGCSEANV 959
GP + FS + K S+ T+ D + SDG ++RG TG S N
Sbjct: 82 GPPRDFSGYNKSYSLAIGKTSYYDPTTGTKWNDDTITPVSDGQDIWRGXTHTGKWSFFNG 141
Query: 960 SESSGLNGSSPENRKRRKVSANHPGFTSEIVPQISEGPV----TPDLSTSGVELPSNS 1013
+ S + + + HPGF P+ GP+ T DL LP++S
Sbjct: 142 KAGDKITLSVQRDAQEASLKGAHPGFILFWRPE--GGPLFWAGTQDLDEGQTALPADS 197
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 31.6 bits (70), Expect = 4.8, Method: Composition-based stats.
Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 22/74 (29%)
Query: 754 LNASSKQPCKGQMSSSVNSSTVEGCPSVMLPGR-CEISAFSSSEETDFHNASTHVDHSNG 812
+N + P GQ+ SS +++T + C SV GR C+++AF G
Sbjct: 279 VNVVVETPISGQLFSSPDANTNQQCASVF--GRSCQLNAF-------------------G 317
Query: 813 DKGSCSGSDRVIIN 826
+ GS SGSD II+
Sbjct: 318 NSGSMSGSDTSIIS 331
>pdb|2VOW|A Chain A, An Oxidized Tryptophan Facilitates Copper-Binding In
Methylococcus Capsulatus Secreted Protein Mope. The
Stucture Of Recombinant Mope To 1.65aa
Length = 336
Score = 31.6 bits (70), Expect = 5.4, Method: Composition-based stats.
Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 6/118 (5%)
Query: 900 GPVKAFSSVQSLNTALSVKDSFPVEVRVTEGLDVGLQSSSDGLSVFRGHNSTGGCSEANV 959
GP + FS + K S+ T+ D + SDG ++RG TG S N
Sbjct: 82 GPPRDFSGYNKSYSLAIGKTSYYDPTTGTKWNDDTITPVSDGQDIWRGWTHTGKWSFFNG 141
Query: 960 SESSGLNGSSPENRKRRKVSANHPGFTSEIVPQISEGPV----TPDLSTSGVELPSNS 1013
+ S + + + HPGF P+ GP+ T DL LP++S
Sbjct: 142 KAGDKITLSVQRDAQEASLKGAHPGFILFWRPE--GGPLFWAGTQDLDEGQTALPADS 197
>pdb|1GWS|A Chain A, Hexadecaheme High Molecular Weight Cytochrome Hmc From
Desulfovibrio Vulgaris Hildenborough
pdb|2CVC|A Chain A, Crystal Structure Of High-Molecular Weight Cytochrome C
From Desulfovibrio Vulgaris (Hildenborough)
Length = 545
Score = 31.2 bits (69), Expect = 7.0, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 9/87 (10%)
Query: 714 RRHEVHVNTCSSAHG--MNTTTSCNIGLLSSQEKMTDSEVGILNASSKQPCKGQMSSSVN 771
+ HE N C + H ++T T+C+ ++ K E + S + C G ++ V
Sbjct: 299 KAHEAKANDCRTCHHVRIDTCTACHTVNGTADSKFVQLEKAMHQPDSMRSCVGCHNTRVQ 358
Query: 772 SSTVEGCPSVMLP-------GRCEISA 791
T GC + P G C ++A
Sbjct: 359 QPTCAGCHGFIKPTKSDAQCGVCHVAA 385
>pdb|2CQE|A Chain A, Solution Structure Of The Zinc-Finger Domain In Kiaa1064
Protein
Length = 98
Score = 30.8 bits (68), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 1976 CEGFLKGYCADGDECRKKHS-YVCPTFKATGSCALGAKCRLHH 2017
C+ ++ G+CA + C H + C + TG+C G C H
Sbjct: 16 CKFYITGFCARAENCPYMHGDFPCKLYHTTGNCINGDDCMFSH 58
>pdb|1H29|A Chain A, Sulfate Respiration In Desulfovibrio Vulgaris
Hildenborough: Structure Of The 16-Heme Cytochrome C
Hmca At 2.5 A Resolution And A View Of Its Role In
Transmembrane Electron Transfer
pdb|1H29|B Chain B, Sulfate Respiration In Desulfovibrio Vulgaris
Hildenborough: Structure Of The 16-Heme Cytochrome C
Hmca At 2.5 A Resolution And A View Of Its Role In
Transmembrane Electron Transfer
pdb|1H29|C Chain C, Sulfate Respiration In Desulfovibrio Vulgaris
Hildenborough: Structure Of The 16-Heme Cytochrome C
Hmca At 2.5 A Resolution And A View Of Its Role In
Transmembrane Electron Transfer
pdb|1H29|D Chain D, Sulfate Respiration In Desulfovibrio Vulgaris
Hildenborough: Structure Of The 16-Heme Cytochrome C
Hmca At 2.5 A Resolution And A View Of Its Role In
Transmembrane Electron Transfer
Length = 514
Score = 30.8 bits (68), Expect = 8.5, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 36/87 (41%), Gaps = 9/87 (10%)
Query: 714 RRHEVHVNTCSSAHG--MNTTTSCNIGLLSSQEKMTDSEVGILNASSKQPCKGQMSSSVN 771
+ HE N C + H ++T T+C+ ++ K E + S + C G ++ V
Sbjct: 268 KAHEAKANDCRTCHHVRIDTCTACHTVNGTADSKFVQLEKAMHQPDSMRSCVGCHNTRVQ 327
Query: 772 SSTVEGCPSVMLP-------GRCEISA 791
T GC + P G C ++A
Sbjct: 328 QPTCAGCHGFIKPTKSDAQCGVCHVAA 354
>pdb|1QDB|A Chain A, Cytochrome C Nitrite Reductase
pdb|1QDB|B Chain B, Cytochrome C Nitrite Reductase
pdb|1QDB|C Chain C, Cytochrome C Nitrite Reductase
Length = 473
Score = 30.8 bits (68), Expect = 8.6, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 1485 GDYTSSPVAEPLPNGC-SETKSDTQKLMEINDELNFSNAALNISKTPV 1531
D T+ V P NG + + + +++ DE+NFS+ NISKTP+
Sbjct: 189 ADKTAMVVTLPWANGVGKDGNAGVEGMIKYYDEINFSDWTHNISKTPM 236
>pdb|3D2Q|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
pdb|3D2Q|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
pdb|3D2Q|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
pdb|3D2Q|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
pdb|3D2S|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
In Complex With Cgcugu Rna
pdb|3D2S|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
In Complex With Cgcugu Rna
pdb|3D2S|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
In Complex With Cgcugu Rna
pdb|3D2S|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4 Domain
In Complex With Cgcugu Rna
Length = 70
Score = 30.8 bits (68), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 10/55 (18%)
Query: 1894 CQFFTRFGKCNKDNGKCPYIH---------DPSKIAVCTKFLKGLCSNSDCKLTH 1939
C+ + R G CN+ C + H + + + VC ++KG CS CK H
Sbjct: 9 CREYQR-GNCNRGENDCRFAHPADSTMIDTNDNTVTVCMDYIKGRCSREKCKYFH 62
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
0.311 0.127 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 60,745,771
Number of Sequences: 62578
Number of extensions: 2484154
Number of successful extensions: 4164
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 4146
Number of HSP's gapped (non-prelim): 28
length of query: 2132
length of database: 14,973,337
effective HSP length: 114
effective length of query: 2018
effective length of database: 7,839,445
effective search space: 15820000010
effective search space used: 15820000010
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 59 (27.3 bits)